cytolib(>= 2.0.3), flowCore (>= 1.99.10), flowWorkspace (>=
3.99.15), openCyto (>= 1.99.2), XML, data.table, jsonlite,
RBGL, Rgraphviz, Biobase, methods, graph, graphics, utils,
base64enc, plyr, dplyr, grDevices, ggcyto (>= 1.11.4),
yaml, lattice, stats, corpcor, RUnit, tibble, RcppParallel,
xml2
stats, GenomeInfoDb, GenomicRanges, IRanges, S4Vectors, readr,
SummarizedExperiment, GenomicAlignments, stringr, plyr,
VariantAnnotation, parallel, ggplot2, Rsamtools, BiocGenerics,
methods, limma, bumphunter, Biostrings, reshape2, cowplot,
utils
MSnbase, RColorBrewer,stats,preprocessCore, Cairo,png,
lattice,reshape2,gplots,pcaMethods,ggplot2,
limma,knitr,tmvtnorm,norm,impute, stringr, grDevices, graphics,
openxlsx, utils, cp4p (>= 0.3.5), scales, Matrix, vioplot,
imp4p (>= 0.8), highcharter (>= 0.7.0), DAPARdata (>= 1.16.0),
siggenes, graph, lme4, readxl, clusterProfiler, dplyr,
tidyr,AnnotationDbi, tidyverse, vsn, FactoMineR, factoextra,
visNetwork
BiocGenerics (>= 0.7.5), Biobase, BiocParallel, genefilter,
methods, stats4, locfit, geneplotter, ggplot2, Rcpp (>= 0.11.0)
zoo (>= 1.8-3), dplyr, tidyr, rlang, mzR (>= 2.18), signal,
ggplot2, scales, gridExtra, RSQLite, DBI, Rcpp
AnnotationDbi, BiocParallel, DO.db, fgsea, ggplot2, GOSemSim
(>= 2.0.0), methods, qvalue, reshape2, stats, utils
utils, graphics, stats, splines, DelayedArray
DESeq2, limma, EDASeq, RColorBrewer, sva, Hmisc, pheatmap,
FactoMineR, corrplot, randomForest, e1071, caret, MASS,
lubridate, plsVarSel, kknn, FSelector, methods, stats, utils,
graphics, grDevices, reshape2, ineq, arm, pls, RSNNS, edgeR,
plyr
methods, matrixStats (>= 0.56.0), Matrix, S4Vectors (>=
0.17.5), IRanges, HDF5Array (>= 1.16.1), BiocParallel
methods, drc, stats, httr, jsonlite, reshape2 , vsn, affy,
limma, stringr, ggplot2, graphics, grDevices, calibrate,
corrgram, gridExtra, DT, shiny, shinydashboard, readxl,
prodlim, matrixStats
BiocParallel, SummarizedExperiment, mclust, utils, ggplot2,
dplyr, tidyr, RColorBrewer, magrittr, gganimate, purrr
gplots, Biobase, GEOquery, limma, arrayQualityMetrics, impute,
RColorBrewer, zoo, igraph, plyr, Matrix, MASS, RCurl, affy,
methods
GenomicRanges, ggplot2, reshape, grid, grDevices, graphics,
methods, parallel, stats, utils, IRanges, GenomeInfoDb,
S4Vectors, GenomicFeatures, TCGAbiolinks (>= 2.9.2), plyr,
Matrix, dplyr, Gviz, ComplexHeatmap, circlize,
MultiAssayExperiment, SummarizedExperiment, biomaRt,
doParallel, downloader, ggrepel, lattice, magrittr, readr,
scales, rvest, xml2, plotly, gridExtra, rmarkdown, stringr,
tibble, tidyr, progress, purrr, reshape2, ggpubr, rtracklayer,
DelayedArray
tools, jsonlite, RCurl, data.table, methods
methods, tools, jsonlite, RCurl, tidyr, data.table, dplyr,
stringr, stringi, utils, AnnotationHub, GenomicRanges,
rtracklayer, S4Vectors, GenomeInfoDb, ENCODExplorerData
foreach, doParallel, parallel, stats, survivalROC, glmnet,
survivalsvm, ggplot2, minfi,
IlluminaHumanMethylation450kanno.ilmn12.hg19, survival, utils
methods, utils, httr, xml2, curl, GenomicFeatures,
GenomicRanges, GenomeInfoDb, BiocGenerics, BiocFileCache,
S4Vectors, IRanges, RSQLite, DBI, Biostrings, tRNAdbImport
shiny, shinydashboard, DT, cowplot, utils, dplyr, magrittr,
tidyr, ggplot2, stats, methods, rintrojs, scales, tibble, MASS,
limma, S4Vectors
igraph (>= 0.6), hwriter, R.utils, XML, plotrix, reshape2,
RColorBrewer, png, methods, stats, utils, graphics, grDevices
AnnotationDbi, BBmisc, Biobase, BiocGenerics, biomaRt,
BSgenome, cowplot, DelayedArray (>= 0.5.11),
DelayedMatrixStats, extraDistr, GenomeInfoDb,
GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges,
grDevices, ggplot2, ggrepel, HDF5Array, matrixStats, methods,
pcaMethods, pheatmap, plotly, PRROC, RColorBrewer, rhdf5,
Rsubread, R.utils, S4Vectors, stats, tibble, tools, utils, VGAM
methods, shiny, stats, IRanges, Biostrings, ShortRead, DT,
S4Vectors, graphics, htmltools, shinyBS, Rcpp (>= 0.12.12)
stats, utils, flowCore, ConsensusClusterPlus, BiocGenerics,
tsne, CytoML, flowWorkspace, XML, RColorBrewer
Biobase, Biostrings, GenomicRanges, SummarizedExperiment,
Rsamtools, ggbio, reshape2, rtracklayer, fda,
GenomicAlignments, gtools, Matrix, methods
Rcpp (>= 1.0.2), httr, googleAuthR, googleCloudStorageR,
methods, jsonlite, utils
BiocManager, Biobase, utils, methods, RSQLite, devtools, dplR,
stringr, graphics, stats, affxparser, data.table
parallel, ggplot2, ggrepel, plyr, vegan, DT, shiny, shinyBS,
stats, utils, grDevices
methods, stats, utils, graphics, BiocGenerics, S4Vectors,
Biobase, SummarizedExperiment, GSEABase, parallel,
BiocParallel, shiny, shinythemes, fastmatch
BiocParallel, Biostrings, CRISPRseek, ChIPpeakAnno,
data.table, matrixStats, BSgenome, parallel, IRanges (>=
2.5.5), S4Vectors (>= 0.9.6), GenomicAlignments (>= 1.7.3),
GenomeInfoDb, Rsamtools, hash, limma,dplyr
graphics, stats, utils, methods, gdsfmt, DBI, RSQLite,
GWASExactHW, DNAcopy, survival, sandwich, lmtest, logistf,
quantsmooth, dplyr
AnnotationDbi, biomaRt, BiocGenerics, Biostrings, DBI, FField,
GenomicFeatures, GenomicRanges (>= 1.25.4), ggplot2 (>= 2.1.0),
gridExtra (>= 2.0.0), gtable, gtools, IRanges (>= 2.7.5), plyr
(>= 1.8.3), reshape2, Rsamtools, scales, viridis, data.table,
BSgenome, GenomeInfoDb, VariantAnnotation
AnnotationDbi, bs4Dash, ComplexHeatmap, dendextend, DESeq2,
dplyr, DT, dynamicTreeCut, ggforce, ggplot2, ggrepel, GO.db,
graphics, grDevices, grid, igraph, matrixStats, methods,
plotly, RColorBrewer, rintrojs, rlang, rmarkdown, S4Vectors,
scales, shiny, shinycssloaders, shinyWidgets, stats,
SummarizedExperiment, tidyr, tools, utils, viridis, visNetwork
stats, utils, XML, Biobase, IRanges (>= 2.3.23), Biostrings,
GenomeInfoDb, AnnotationHub, rhdf5, DelayedArray, HDF5Array
methods, BiocGenerics (>= 0.21.2), Rcpp (>= 0.11.2), IRanges
(>= 2.19.13), data.table, stats4, stats, utils
AnnotationDbi, ape, bnlearn, Category, DT, doParallel,
foreach, gRbase, GSEABase, gRain, GOstats, org.Hs.eg.db,
org.Mm.eg.db, shiny, WGCNA, data.table, grDevices, graphics,
reshape2, stats, utils
XVector (>= 0.5.7), rtracklayer (>= 1.25.13), lattice,
RColorBrewer, biomaRt (>= 2.11.0), AnnotationDbi (>= 1.27.5),
Biobase (>= 2.15.3), GenomicFeatures (>= 1.17.22), ensembldb
(>= 2.11.3), BSgenome (>= 1.33.1), Biostrings (>= 2.33.11),
biovizBase (>= 1.13.8), Rsamtools (>= 1.17.28), latticeExtra
(>= 0.6-26), matrixStats (>= 0.8.14), GenomicAlignments (>=
1.1.16), GenomeInfoDb (>= 1.1.3), BiocGenerics (>= 0.11.3),
digest(>= 0.6.8), graphics, grDevices, stats, utils
utils, stats, tools, Matrix, BiocGenerics (>= 0.31.5),
S4Vectors, IRanges
ggplot2, graphics, stats, reshape2, gridExtra, Rtsne, umap,
dplyr, rlang, magrittr, irlba, Matrix, SingleCellExperiment,
ggrepel
AnnotationHub, assertthat, dplyr, ExperimentHub, kableExtra,
knitr, magrittr, methods, readr, S4Vectors, stringr, tibble,
utils
Rcpp (>= 0.11.2), graphics, stats, methods
pROC, deSolve, rootSolve, KernSmooth, gdata, GenomicFeatures,
GenomicRanges, IRanges, BiocGenerics, GenomicAlignments,
Rsamtools, S4Vectors, GenomeInfoDb, DESeq2, plgem, rtracklayer,
SummarizedExperiment, TxDb.Mmusculus.UCSC.mm9.knownGene, shiny
seqLogo, Biostrings, GenomicFeatures (>= 1.39.4), IRanges,
seqinr, graphics, grDevices, stats, utils, grid, methods, DBI,
RMySQL, GenomicAlignments, BiocParallel, BiocGenerics, DEXSeq,
DESeq2
methods, Matrix, Rcpp, BiocGenerics, S4Vectors (>= 0.25.14),
IRanges, GenomeInfoDb
stringr, kernlab, ggplot2 (>= 3.3.0), rlist, rmarkdown,
reshape2, gplots, caret, XML, class, praznik, R.utils, e1071,
randomForest, httr, jsonlite, sva (>= 3.30.1), edgeR (>=
3.24.3), limma (>= 3.38.3), Biobase, multtest, pathview (>=
1.22.3), grDevices, graphics, stats, utils, Hmisc (>= 4.4.0),
gridExtra
graphics, grDevices, igraph, parallel, RColorBrewer, Rfast,
stats, SummarizedExperiment, utils
ggplot2, Matrix, doSNOW, cluster, parallel, foreach,
doParallel, matrixcalc, Rtsne, corpcor, umap
stats, graphics, utils, limma (>= 3.30.13),
SummarizedExperiment (>= 1.10.0), preprocessCore (>= 1.36.0),
BiocFileCache, rappdirs, rpx, xml2, RCurl, ggplot2, PairedData
GenomicRanges, limma, vegan, BiocGenerics, minfi, IRanges,
S4Vectors, methods, parallel, ggplot2 (>= 2.0.0), permute,
Gviz, missMethyl, isva, SummarizedExperiment, SmartSVA,
graphics, stats, utils, matrixStats
impute (>= 1.58), dynamicTreeCut (>= 1.63), glmnet (>= 2.0),
grDevices, graphics, stats, utils, stringr, tibble, RPMM (>=
1.25), minfi (>= 1.30), dplyr, SummarizedExperiment, wateRmelon
methods, Formula, data.table, pracma, MCMCpack, coda, modeest,
testthat, Rcpp, scales, dplyr, tidyr, rlang
circlize, cluster, ComplexHeatmap, dplyr, ggplot2, graphics,
grid, grDevices, magrittr, methods, MKmisc,
MultiAssayExperiment, parallel, qvalue, RColorBrewer, readr,
reshape2, rlang, stats, stringr, tibble, tidyr, utils
shiny, MSstatsQC, ggExtra, gridExtra, plotly, dplyr, grid
lme4, marray, limma, gplots, ggplot2, methods, grid, ggrepel,
preprocessCore, reshape2, survival, statmod, minpack.lm, utils,
grDevices, graphics, stats, doSNOW, snow, foreach, data.table,
MASS, dplyr, tidyr, broom, purrr, stringr,
utils, S4Vectors, IRanges, GenomicRanges, GenomeInfoDb,
BSgenome, rhdf5, HDF5Array
data.table, parallel, ROCR, matrixcalc, mclust, ggplot2,
doParallel, foreach, MCMCpack, cowplot, magrittr, mvtnorm,
truncnorm, assertthat, BiocStyle, stats, utils
ape, plyr, tidyr, ggplot2, phyloseq, magrittr, dplyr,
Biostrings, ggrepel, vegan, rentrez, reshape, zoo, ggtree,
tidytree, gtools, MASS, methods, randomForest, rlang, tibble,
grDevices, stats, utils, coin, ggsignif, scales, Rmisc,
DECIPHER, biomformat, yaml, phangorn, patchwork
methods, BiocGenerics, GenomicRanges, S4Vectors, IRanges,
XVector, stringi, stringr, crayon, grDevices
dplyr, tidyr, BiocParallel, broom, MASS, rlang, magrittr,
stats, methods
KEGGREST,png,dplyr,graphics,RSQLite,DBI,tidyr,grDevices,
S4Vectors,SummarizedExperiment,reactome.db,rWikiPathways,RCurl,
dbplyr,utils,ggplot2,igraph,stats,reshape2,readr,
GO.db,zlibbioc,
biomaRt,rtracklayer,IRanges,GenomicRanges,GenomicFeatures,AnnotationDbi
BBmisc, BiocGenerics, DESeq2 (>= 1.16.1), generics,
GenomicRanges, ggplot2, grDevices, heatmaply, pheatmap,
graphics, IRanges, matrixStats, plotly, plyr, pcaMethods,
PRROC, RColorBrewer, Rcpp, reshape2, S4Vectors, scales,
splines, stats, utils
Rcpp (>= 0.12.4), parallel, data.table, graph, Rgraphviz,
gtools, igraph, methods, RColorBrewer, grDevices, car, dplyr,
smatr, ggplot2, ggrepel
MASS, jsonlite, Hmisc, methods, knitr, AICcmodavg, car, rlist,
summarytools, graphics, stats, utils
RSQLite, S4Vectors, GenomeInfoDb, IRanges, GenomicRanges,
GenomicFeatures, AnnotationDbi, methods, tools, utils,
BiocFileCache, DBI, dbplyr, tibble
limma, AnnotationDbi, GSA, foreach, doRNG, hgu133plus2.db,
hgu133a.db, KEGGREST, nlme
utils, stats, graphics, grDevices, methods, IRanges,
GenomicRanges, Rsamtools, GenomicAlignments
methods, PICS, graphics, grDevices, stats, Gviz, fda,
BSgenome, stats4, BiocGenerics, IRanges, GenomicRanges,
S4Vectors
Biobase, S4Vectors, SummarizedExperiment, BiocParallel,
ggplot2, magicaxis, RColorBrewer, parallel, caTools, methods,
downloader, stats, utils, graphics, grDevices, reshape2,
testthat, jsonlite
Matrix, ggbio, GenomicRanges, GenomeInfoDb, supraHex, scales,
grDevices, ggrepel, ROCR, randomForest, glmnet, Gviz, lattice,
caret, plot3D, stats, methods, MASS, IRanges, BiocGenerics,
dplyr, tidyr, ggnetwork, osfr, RCircos, purrr, readr, tibble
DAPAR (>= 1.19.16), DAPARdata (>= 1.16.0), rhandsontable,
data.table, shinyjs, DT, shiny, shinyBS, shinyAce, highcharter,
htmlwidgets, webshot, R.utils, shinythemes, XML,later,
rclipboard, shinycssloaders, future, promises, colourpicker,
BiocManager, shinyjqui,shinyTree, shinyWidgets, sass, tibble
ggplot2, igraph, ggrepel,rentrez, progress, graphics, dplyr,
utils, methods, intergraph, network, sna
methods, grDevices, graphics, utils, BiocGenerics, S4Vectors,
IRanges, BiocManager, Biobase, Biostrings, BSgenome, Rsamtools,
GenomicFeatures, ShortRead, GenomicAlignments, BiocParallel,
GenomeInfoDb, rtracklayer, GenomicFiles, Rhisat2, AnnotationDbi
GenomicRanges, IRanges, BSgenome, BSgenome.Hsapiens.UCSC.hg19,
GenomeInfoDb (>= 1.12.0), Biostrings, rtracklayer,
GenomicFeatures, rmarkdown (>= 0.9.5), genomation (>= 1.5.5),
knitr (>= 1.12.3), BiocGenerics, S4Vectors, plotrix, pbapply,
RSQLite, proxy, pheatmap, ggplot2, cowplot, ggseqlogo, utils,
ranger, gprofiler2
AnnotationDbi, graphics, IRanges (>= 1.13.5), stats, utils
graphics, stats, utils, grid, gridExtra, reshape2, gplots,
ggplot2, plotrix, RColorBrewer, STRINGdb, MCL, linkcomm,
dynamicTreeCut, gsubfn, hash, png, sqldf, igraph, BgeeDB,
knitr, RITANdata
ggplot2, recount, impute, AnnotationDbi, org.Hs.eg.db, stats,
SummarizedExperiment, methods
stats, grDevices, grid, ggplot2, gplots, utils, TMB, nloptr,
scales
methods, BiocGenerics, S4Vectors, IRanges, GenomicRanges,
stats, ranger
methods, stats, grDevices, matrixStats, BiocGenerics,
Biostrings (>= 2.55.7), BiocParallel, GenomicFeatures,
GenomicAlignments, GenomeInfoDb, rtracklayer, Rsamtools,
BSgenome, RColorBrewer, colorRamps, ggplot2, Gviz (>= 1.31.0),
reshape2, graphics, ROCR
BiocGenerics, data.table, DelayedArray, GenomicRanges,
GenomeInfoDb, httr, limma, methods, RaggedExperiment, RCircos,
RCurl, RJSONIO, S4Vectors (>= 0.23.10), stats, stringr,
SummarizedExperiment, survival, TCGAutils, XML
RedeR, minet, viper, mixtools, snow, stats, limma, data.table,
IRanges, igraph, S4Vectors, SummarizedExperiment, car, pwr,
pheatmap, grDevices, graphics, utils
corrplot, MASS, stats, lattice, grDevices, gridExtra,
snowfall, psych, BiocParallel, grid, bladderbatch, reshape2,
graphics
jsonlite, httr, progress, ggplot2, methods, gplots,
RColorBrewer
parallel, S4Vectors (>= 0.17.25), IRanges (>= 2.13.12),
GenomeInfoDb, GenomicRanges, Biostrings, Rsamtools,
GenomicAlignments, rtracklayer, BSgenome (>= 1.47.3), gplots,
grid, MASS, gsmoothr, edgeR (>= 3.4.0), DNAcopy, Ringo, Rsolnp,
cluster
utils, BiocGenerics (>= 0.25.1), S4Vectors (>= 0.17.25),
IRanges (>= 2.13.12), XVector (>= 0.19.7), zlibbioc, bitops,
BiocParallel, stats
stats, grDevices, graphics, utils, DescTools, RColorBrewer,
gplots, foreach, parallel, doParallel, DNAcopy, BSgenome,
Biostrings, BiocGenerics, S4Vectors
S4Vectors, SummarizedExperiment, data.table, pheatmap,
seriation, ComplexHeatmap, circlize, methods, BiocParallel,
randomcoloR, edgeR, openxlsx
magrittr (>= 1.5), dplyr, stats, tidyr, utils, Rcpp (>= 1.0.0)
scales, plyr, Hmisc, AnnotationDbi, org.Hs.eg.db, ggplot2,
reactome.db, KEGGREST, BioNet, goseq, methods, IRanges, igraph,
Biobase,tools, S4Vectors, geneLenDataBase, grDevices, graphics,
stats, utils
dplyr, foreach, doParallel, truncnorm, GenomicRanges, IRanges,
Rsamtools, parallel, graphics, stats, utils, methods
AnnotationHub, BiocFileCache, ExperimentHub, rappdirs, utils
BiocManager, circlize, limma, igraph, gplots, grDevices,
edgeR, SIMLR, data.table, pheatmap, stats, Rtsne, graphics,
stringr, foreach, multtest, scran, utils,
methods, Matrix, S4Vectors, BiocGenerics, DelayedArray,
DelayedMatrixStats, BiocNeighbors, BiocParallel, BiocSingular,
stats, utils, Rcpp, ExperimentHub
methods, utils, graphics, igraph, BiocGenerics, S4Vectors (>=
0.17.5), BiocParallel, IRanges (>= 2.21.2), GenomeInfoDb,
GenomicRanges (>= 1.23.21), GenomicFeatures, Rsamtools,
GenomicAlignments, graph, Rgraphviz
methods, BiocGenerics, XVector, stringr, stringi, crayon,
grDevices
utils, stats, tools, Matrix, BiocGenerics (>= 0.15.3),
S4Vectors (>= 0.25.14), IRanges (>= 2.21.6), GenomeInfoDb (>=
1.13.1)
methods, Biostrings, S4Vectors, IRanges, utils, stats
methods, GenomicAlignments, GenomicRanges, IRanges,
BiocGenerics, S4Vectors (>= 0.20.1), GenomeInfoDb, BSgenome,
GenomicFeatures, Biostrings, dplyr, tidyr, BiocParallel
ASSIGN (>= 1.23.1), GSVA, SummarizedExperiment, S4Vectors,
methods, BiocParallel, ComplexHeatmap, RColorBrewer, ggplot2,
reshape2, circlize, glmnet, ROCit, bioDist, readr, boot,
DESeq2, caret, ggfortify, e1071, DT, edgeR, singscore, gdata,
shiny
downloader (>= 0.4), grDevices, dplyr, graphics, tibble,
GenomicRanges, XML (>= 3.98.0), data.table, jsonlite (>=
1.0.0), plyr, knitr, methods, biomaRt, ggplot2, stringr (>=
1.0.0), IRanges, rvest (>= 0.3.0), stats, utils, S4Vectors,
R.utils, SummarizedExperiment (>= 1.4.0), readr, tools, tidyr,
purrr, xml2, httr (>= 1.2.1)
ggplot2, tidyr, foreach, doParallel, openxlsx, stringr, RCurl,
parallel, MASS, BiocParallel, limma
biobroom, broom, data.table, doParallel, foreach,
futile.logger, ggplot2, grDevices, gridExtra, grid, knitr,
limma, MASS, mefa, nls2, openxlsx (>= 2.4.0), parallel, plyr,
purrr, RColorBrewer, RCurl, reshape2, rmarkdown, splines,
stats, stringr, tibble, utils, VennDiagram, VGAM
AnnotationFilter, BiocGenerics (>= 0.25.1), BiocParallel,
Biostrings, ensembldb, ensemblVEP, GenomeInfoDb, GenomicRanges,
GGally, ggplot2, Gviz, limma, IRanges (>= 2.21.6), reshape2,
Rsamtools, S4Vectors (>= 0.25.14), SummarizedExperiment,
VariantAnnotation (>= 1.19.9)
methods, BiocGenerics, utils, ape, rlang, dplyr,
SummarizedExperiment
lsei, SomaticSignatures, VariantAnnotation, GenomeInfoDb,
reshape2, gridExtra, corrplot, dendextend, GetoptLong,
circlize, gtrellis, doParallel, PMCMR, ggbeeswarm,
ComplexHeatmap, KEGGREST, grDevices, Biostrings,
BSgenome.Hsapiens.UCSC.hg19, magrittr, pracma, dplyr, utils
Biobase, grDevices, graphics, methods, stats, splines, utils
grDevices, graphics, stats, utils, tcltk, tkrplot, limma,
affy, affyio, affyPLM, gcrma, BiocGenerics, AnnotationDbi,
BiocManager, R2HTML, xtable
rmarkdown, tools, methods, ggplot2, GGally, dplyr, rjson,
shiny, shinydashboard, DT, stats, utils, tximport (>= 1.11.5),
cowplot, rlang
shiny, shinyjs, DT, VariantAnnotation, BSgenome,
BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene,
Homo.sapiens, SNPlocs.Hsapiens.dbSNP144.GRCh37,
XtraSNPlocs.Hsapiens.dbSNP144.GRCh37, rsnps, Biostrings,
MafDb.1Kgenomes.phase3.hs37d5, MafDb.ExAC.r1.0.hs37d5,
MafDb.gnomADex.r2.1.hs37d5, COSMIC.67, rentrez,
PolyPhen.Hsapiens.dbSNP131, SIFT.Hsapiens.dbSNP137, seqinr,
openxlsx, Rsamtools, stringr, utils, stats, GenomicRanges,
S4Vectors, GenomicFeatures, IRanges, GenomicScores,
SummarizedExperiment
SummarizedExperiment, S4Vectors, BiocGenerics, Rcpp, stats,
methods, utils, igraph, BiocNeighbors, BiocSingular, Matrix,
DelayedArray, DelayedMatrixStats, scater, BiocParallel
utils, XML, AnnotationDbi, progress, stringr, httr, openssl,
BiocFileCache, rappdirs, xml2
stats, methods, dplyr, tibble, ggplot2, ggsci, superheat,
assertthat, future, doFuture, drtmle (>= 1.0.4), S4Vectors,
BiocGenerics, BiocParallel, SummarizedExperiment, limma
readr, qualV, Matrix, impute, HDF5Array, S4Vectors, Rsamtools,
data.table, Biobase, GenomicRanges, BiocGenerics,
VariantAnnotation, DelayedMatrixStats, SummarizedExperiment,
GenomeInfoDb, Mus.musculus, Homo.sapiens, matrixStats,
rtracklayer, QDNAseq, dmrseq, methods, utils, R.utils, gtools,
BiocParallel
Rcpp (>= 0.12.12), IRanges, rhdf5, data.table, GenomeInfoDb,
S4Vectors, matrixStats, preprocessCore, sva, parallel, EBImage,
utils
IRanges (>= 2.22.2), GenomeInfoDb, scales, stats, graphics,
Biobase, locfit, gtools, data.table (>= 1.11.8), S4Vectors (>=
0.25.14), R.utils (>= 2.0.0), DelayedMatrixStats (>= 1.5.2),
permute, limma, DelayedArray (>= 0.9.8), Rcpp, BiocParallel,
BSgenome, Biostrings, utils, HDF5Array (>= 1.11.9), rhdf5
BiocFileCache (>= 1.5.3), digest, dplyr, GenomeInfoDb,
GenomicRanges, httr, IRanges, methods, readr, RaggedExperiment,
RTCGAToolbox (>= 2.15.8), S4Vectors, SummarizedExperiment,
stats, tibble, tidyr, TCGAutils, utils
biomaRt, cowplot, data.table, dplyr, fgsea, ggplot2, ggrepel,
graphics, httr, limma, methods, pbapply, R.utils, readxl,
reshape2, rhdf5, scales, stats, tools, utils
furrr, rlang, tibble, ggplot2, ggraph, igraph, purrr, tidyr,
future, stats
plyr, foreach, ggplot2, RColorBrewer, grid, scales, gtable,
grDevices, graphics, matrixStats, doParallel, digest,
gridExtra, methods, reshape2, MAST, S4Vectors, data.table,
Rcpp, RcppEigen, uwot, enrichR, stringi, SummarizedExperiment,
MCMCprecision, ggrepel, Rtsne, withr, dendextend, ggdendro,
pROC, scater (>= 1.14.4), scran, SingleCellExperiment, dbscan,
DelayedArray, Seurat, stringr, Matrix
dplyr, magrittr, readr, rtracklayer, stringr, stringi, DESeq2,
edgeR, GenomicRanges, IRanges, seqinr, R.utils, reshape2,
ggplot2, utils, rlang, S4Vectors, stats, GenomeInfoDb,
universalmotif, AnnotationHub, BSgenome.Hsapiens.UCSC.hg19,
Biostrings, BSgenome,
AnnotationDbi, downloader, DOSE (>= 3.13.1), dplyr, enrichplot
(>= 1.7.1), GO.db, GOSemSim, magrittr, methods, plyr, qvalue,
rlang, rvcheck, stats, tidyr, utils
cowplot, dplyr, entropy, fgsea, ggplot2, Matrix, readr, rlang,
scales, stringr, tibble, tidyr, stats, methods,
SingleCellExperiment, SummarizedExperiment, matrixStats,
S4Vectors
methods, rhdf5, data.table, prada, SummarizedExperiment,
matrixStats
methods, class, gplots, mclust, amap, apcluster, foreach,
parallel, doParallel, fastcluster, corrplot, biwt, Biobase,
reshape2, stringr, tibble, tidyr, dplyr, devtools
grDevices, graphics, grid, stats, utils, ComplexHeatmap (>=
2.4.2), matrixStats, GetoptLong, circlize (>= 0.4.7),
GlobalOptions (>= 0.1.0), clue, parallel, RColorBrewer,
cluster, skmeans, png, mclust, crayon, methods, xml2,
microbenchmark, httr, knitr, markdown, digest, impute, brew,
Rcpp (>= 0.11.0), BiocGenerics, eulerr
ggplot2, nleqslv, phyloseq, tensor, stats, limma, Matrix, BB,
reshape2, alabama, cobs, Biobase, vegan, grDevices, graphics,
methods, SummarizedExperiment
methods, Biobase (>= 2.15.4), BiocGenerics, affyio (>=
1.23.2), illuminaio, ellipse, mvtnorm, splines, stats, utils,
lattice, ff, foreach, RcppEigen (>= 0.3.1.2.1), matrixStats,
VGAM, parallel, graphics, limma, beanplot
Biobase, BiocGenerics, graphics, grDevices, ggplot2, igraph,
Matrix, methods, Matrix, utils, sincell, TSCAN, HSMMSingleCell
viridis, methods, shiny, graphics, stats, grDevices, utils,
BiocGenerics, S4Vectors, BiocParallel, SummarizedExperiment,
flowCore, Biobase, Rcpp, BiocNeighbors
S4Vectors, RColorBrewer, viridis, utils, SummarizedExperiment,
tools, graphics, raster, grDevices, stats
pheatmap, Biostrings, UniProt.ws, BiocGenerics, utils,
biomaRt, grid, motifStack, grImport2, methods
CompQuadForm, ggplot2, KernSmooth, matrixStats, methods,
parallel, pbapply, stats, statmod
shiny, jsonlite, shinyjs, shinydashboard, shinyBS, gplots, DT,
ggplot2, RColorBrewer, annotate, AnnotationDbi, DESeq2, DOSE,
igraph, grDevices, graphics, stats, utils, GenomicRanges,
IRanges, S4Vectors, SummarizedExperiment, stringi, reshape2,
org.Hs.eg.db, org.Mm.eg.db, limma, edgeR, clusterProfiler,
methods, sva, RCurl, enrichplot, colourpicker, plotly,
heatmaply, Harman, pathview
methods, Matrix, quadprog(>= 1.5-5), GenomicRanges, stats,
GenomicFeatures, Biostrings, BiocGenerics, S4Vectors, plyr,
utils, graphics, BSgenome.Hsapiens.UCSC.hg19,
TxDb.Hsapiens.UCSC.hg19.knownGene, VariantAnnotation,
SummarizedExperiment, ggseqlogo, gridExtra, data.table,
GenomeInfoDb
BiocGenerics (>= 0.25.1), AnnotationDbi (>= 1.27.9),
BiocParallel (>= 1.15.15), bumphunter (>= 1.9.2),
derfinderHelper (>= 1.1.0), GenomeInfoDb (>= 1.3.3),
GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges
(>= 1.17.40), Hmisc, IRanges (>= 2.3.23), methods, qvalue (>=
1.99.0), Rsamtools (>= 1.25.0), rtracklayer, S4Vectors (>=
0.23.19), stats, utils
Rcpp, stats, SummarizedExperiment, SingleCellExperiment,
methods, Matrix, foreach, parallel, doParallel, doRNG, ggplot2,
limma, scater
methods, colorspace (>= 1.4), gridExtra, cowplot, reshape2,
pheatmap, grDevices, ggrepel, ggridges, stats, utils,
SummarizedExperiment, SingleCellExperiment, edgeR, S4Vectors
MASS, IRanges, BSgenome, grDevices, parallel
methods, graphics, stats, utils, locfit, Rcpp
graphics, stats, GenomicRanges, GenomicFeatures, S4Vectors,
IRanges, AnnotationDbi, limma, edgeR, methods,
SummarizedExperiment, BiocGenerics, rtracklayer, utils
AnnotationDbi, cowplot, DOSE (>= 3.13.1), europepmc, ggplot2,
ggplotify, ggraph, ggridges, GOSemSim, graphics, grDevices,
grid, gridExtra, igraph, methods, plyr, purrr, RColorBrewer,
reshape2, stats, utils, scatterpie
BoolNet, e1071, gtools, stats, igraph, utils, lattice,
latticeExtra, RColorBrewer, pcalg, minet, grDevices, graph,
mnem
epivizrServer (>= 1.1.1), epivizrData (>= 1.3.4),
GenomicRanges, S4Vectors, IRanges, bumphunter, GenomeInfoDb
Rcpp (>= 0.12.11), methods, knitr, Rbowtie2, rtracklayer,
ggplot2, Biostrings, ChIPseeker, clusterProfiler, igraph,
rJava, magrittr, digest, BSgenome, AnnotationDbi,
GenomicFeatures, R.utils, GenomeInfoDb, BiocGenerics,
S4Vectors, IRanges, rmarkdown, tools, VennDiagram, grid,
JASPAR2018, TFBSTools, grDevices, graphics, stats, utils,
parallel, corrplot, BiocManager, motifmatchr
Rcpp, data.table, BiocParallel, stats, ggplot2 (>= 2.2.0),
gridExtra, grid, fastmatch, Matrix, utils
graphics, stats, utils, methods, abind, gtools, qvalue,
S4Vectors, SummarizedExperiment, matrixStats, svMisc, Rcpp,
Matrix
Biobase, BiocGenerics (>= 0.29.2), grDevices, graphics,
methods, stats, utils, stats4, Rcpp, matrixStats, cytolib (>=
1.9.15)
BiocGenerics, MASS, flowCore (>= 1.99.6), flowWorkspace,
ncdfFlow(>= 2.19.5), flowViz, fda (>= 2.2.6), Biobase, methods,
grDevices, graphics, stats, cluster, utils, KernSmooth,
lattice, ks, RColorBrewer, rrcov
Biobase, BiocGenerics, cytolib (>= 1.99.26), lattice,
latticeExtra, XML, ggplot2, graph, graphics, grDevices,
methods, stats, stats4, utils, RBGL, tools, Rgraphviz,
data.table, dplyr, Rcpp, stringr, scales, matrixStats,
RcppParallel, RProtoBufLib, digest, flowCore(>= 1.99.20),
ncdfFlow(>= 2.25.4)
Biobase, limma, RobustRankAggreg, ggplot2, PANTHER.db,
rmarkdown, grDevices, graphics, stats, utils, parallel,
SummarizedExperiment
plyr, scales, hexbin, data.table, RColorBrewer, gridExtra,
rlang
ape, aplot (>= 0.0.4), dplyr, ggplot2 (>= 3.0.0), grid,
magrittr, methods, purrr, rlang, rvcheck, tidyr, tidytree (>=
0.2.6), treeio (>= 1.8.0), utils
Rcpp, pracma, DelayedMatrixStats, DelayedArray, HDF5Array,
SummarizedExperiment, methods, stats, utils
grid, gridBase, Rsamtools, ComplexHeatmap, BiocGenerics,
Biostrings, GenomeInfoDb, methods, GenomicAlignments,
GenomicFeatures, IRanges, rtracklayer, pracma, colorspace,
S4Vectors
Deriv, DescTools, digest, pryr, stringr, BiocGenerics
methods, BiocGenerics, S4Vectors (>= 0.9.25), IRanges,
GenomeInfoDb, GenomicRanges (>= 1.29.6), GenomicFeatures,
Biostrings, Rsamtools, rtracklayer, AnnotationDbi, utils,
ggplot2
ggplot2, ggforce, R6, magrittr, dplyr, purrr, stats, stringr,
scales, rlang, httr, openxlsx, reactable, msigdbr, kableExtra,
rmarkdown, igraph, visNetwork
methods, BiocGenerics, S4Vectors, utils, stats, shiny,
shinydashboard, shinyAce, shinyjs, DT, rintrojs, ggplot2,
colourpicker, igraph, vipor, mgcv, graphics, grDevices,
viridisLite, shinyWidgets, ComplexHeatmap, circlize
methods, S4Vectors, shiny, SummarizedExperiment,
SingleCellExperiment, ggplot2, DT, stats
DESeq2, SummarizedExperiment, GenomicRanges, IRanges,
S4Vectors, ggplot2 (>= 2.0.0), heatmaply, plotly, pheatmap,
pcaExplorer, IHW, gplots, UpSetR, goseq, stringr, dplyr, limma,
GOstats, GO.db, AnnotationDbi, shiny (>= 0.12.0),
shinydashboard, shinyBS, DT, rentrez, rintrojs, ggrepel, knitr,
rmarkdown, shinyAce, BiocParallel, grDevices, base64enc,
methods
methods, BiocGenerics, httpuv, utils, MotifDb, seqLogo,
rtracklayer, VariantAnnotation, RColorBrewer
GenomicRanges, GenomicAlignments, methods, S4Vectors,
parallel, IRanges
Biobase, graphics, methods, utils, grDevices
biomaRt, fgsea, GenomicFeatures, GenomicRanges, ggplot2,
graphics, grDevices, Gviz, IRanges, limma, methods, parallel,
S4Vectors, stats, SummarizedExperiment, utils
data.table, RColorBrewer, methods, grDevices, survival
methods, DelayedArray, Rcpp, SingleCellExperiment,
SummarizedExperiment, ClusterR, benchmarkme, Matrix,
BiocParallel
rtracklayer, tools, GenomicAlignments, GenomeInfoDb, IRanges,
ggplot2, Rsamtools, DBChIP, purrr, data.table, methods, dplyr,
magrittr, reshape2
parallel, matrixStats, foreach, Matrix, gplots, graphics,
grDevices, stats, utils, Wrench
ABSSeq, baySeq, Biobase, BiocParallel, biomaRt, Biostrings,
corrplot, DESeq, DSS, DT, EDASeq, edgeR, GenomeInfoDb,
GenomicAlignments, GenomicFeatures, GenomicRanges, gplots,
graphics, grDevices, heatmaply, htmltools, httr, IRanges,
jsonlite, log4r, NOISeq, magrittr, methods, NBPSeq, pander,
parallel, qvalue, rmarkdown, rmdformats, Rsamtools, RSQLite,
rtracklayer, S4Vectors, stats, stringr, SummarizedExperiment,
survcomp, utils, VennDiagram, vsn, zoo
bsseq, DelayedArray, DelayedMatrixStats, DSS, IRanges,
GenomeInfoDb, GenomicRanges, methods, parallel, stats,
S4Vectors
WGCNA, flashClust, dynamicTreeCut, GFA, igraph, linkcomm, MCL,
NMF, biclust, iBBiG, fabia, BicARE, isa2, s4vd, BiBitR, rqubic,
Biobase, PMA, stats, dbscan, subspace, mclust, SOMbrero,
ppclust, miRspongeR, Rcpp, utils, SummarizedExperiment,
GSEABase, org.Hs.eg.db, MatrixCorrelation, energy
graphics, ggplot2, MASS, tmvtnorm, Matrix, mvtnorm, pbapply,
stats, phyloseq, metagenomeSeq, Biobase
dplyr, reshape2, Rtsne, scales, stats, tibble, tidyr, utils,
vegan
AnnotationDbi, BiasedUrn, Biobase, BiocGenerics,
GenomicRanges, GO.db, IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylation450kanno.ilmn12.hg19,
IlluminaHumanMethylationEPICmanifest,
IlluminaHumanMethylationEPICanno.ilm10b4.hg19, IRanges, limma,
methods, methylumi, minfi, org.Hs.eg.db, ruv, S4Vectors,
statmod, stringr, SummarizedExperiment
stats, grDevices, graphics, utils, MASS, plyr, reshape2,
parallel, GGally, grid, gridExtra, knitr, rmarkdown, ggplot2,
gplots, beeswarm, echarts4r
cluster, graph, Rgraphviz, flexclust, lattice, naturalsort,
snowfall, stats4, tsne, methods, graphics, stats, utils,
Linnorm, data.table, Rcpp, RcppEigen, matrixStats, grDevices,
e1071
BiocParallel, blme, ComplexHeatmap, data.table, DESeq2, dplyr,
edgeR, ggplot2, glmmTMB, grDevices, grid, limma, lmerTest,
lme4, Matrix, matrixStats, methods, progress, purrr, S4Vectors,
scales, scater, sctransform, stats, SingleCellExperiment,
SummarizedExperiment, variancePartition, viridis
entropy, SummarizedExperiment, SingleCellExperiment, Matrix,
cluster, data.table, stats, methods, DelayedArray, HDF5Array
(>= 1.15.13)
RColorBrewer, DT, stats, clusterProfiler, data.table, gplots,
jsonlite, plyr
glasso, mvtnorm, GeneNet, huge, CompQuadForm, ggm, mclust,
parallel, GSA, limma, multtest, ICSNP, glmnet, network,
ggplot2, grDevices, graphics, stats, utils
Biostrings, checkmate, dplyr (>= 0.8.0), DT, FactoMineR,
forcats, ggdendro, grDevices, grid, lubridate, methods, pander,
parallel, plotly, readr, reshape2, rmarkdown, Rsamtools,
scales, ShortRead, stats, stringr, tidyr, tidyselect (>=
0.2.3), truncnorm, utils, viridisLite, XVector, zoo
Biobase, BiocGenerics, Biostrings, GenomeInfoDb,
GenomicRanges, IRanges, Rsamtools, S4Vectors, ShortRead, dplyr,
ggplot2, magrittr, parallel, stats, utils, grDevices
BiocGenerics (>= 0.27.1), Biobase (>= 2.17.8), methods,
graphics, IRanges (>= 2.5.17), GenomicRanges (>= 1.23.7),
SummarizedExperiment, Biostrings (>= 2.23.6), affyio (>=
1.23.2), foreach, BiocManager, utils, S4Vectors (>= 0.9.25),
RSQLite, DBI, ff
Biobase, S4Vectors, methods, AnnotationDbi, stats, utils,
shiny, graph, Rgraphviz, ontologyPlot, dplyr, magrittr, DT
methods,Biobase,BiocGenerics,gtools,flowCore(>=
1.99.17),flowViz,ncdfFlow(>= 2.11.34),flowWorkspace(>=
3.99.1),flowStats(>= 3.99.1),flowClust(>=
3.11.4),MASS,clue,plyr,RBGL,graph,data.table,ks,RColorBrewer,lattice,rrcov,R.utils
transport, parallel, Rfast, robustbase, dbscan, randomForest,
foreach, graphics, doParallel, stats, flowMeans, rgl, ellipse
stats4, Biobase, mclust (>= 4.3), caret, e1071, sampling,
class, kernlab, lattice, nnet, randomForest, proxy, FNN,
hexbin, BiocGenerics, stats, dendextend, RColorBrewer, scales,
MASS, knitr, mvtnorm, LaplacesDemon, coda, mixtools, gtools,
plyr, ggplot2, biomaRt, utils, grDevices, graphics
Biostrings, GenomicRanges, kmer, ape, methods, IRanges,
S4Vectors
KEGGgraph, XML, Rgraphviz, graph, png, AnnotationDbi,
org.Hs.eg.db, KEGGREST, methods, utils
DESeq2, SummarizedExperiment, GenomicRanges, IRanges,
S4Vectors, genefilter, ggplot2 (>= 2.0.0), heatmaply, plotly,
scales, NMF, plyr, topGO, limma, GOstats, GO.db, AnnotationDbi,
shiny (>= 0.12.0), shinydashboard, shinyBS, ggrepel, DT,
shinyAce, threejs, biomaRt, pheatmap, knitr, rmarkdown,
base64enc, tidyr, grDevices, methods
assertthat, circular, conicfit, doParallel, foreach, genlasso
(>= 1.4), graphics, methods, parallel, scater,
SingleCellExperiment, SummarizedExperiment, stats, utils
ggplot2, protolite, Biobase, GEOquery, Rook, htmltools,
httpuv, jsonlite, limma, opencpu, assertthat, methods, httr,
rhdf5, utils, parallel, stringr, fgsea (>= 1.9.4), svglite,
gtable, stats, Matrix, pheatmap, scales, ccaPP, grid,
grDevices, AnnotationDbi, DESeq2
SingleCellExperiment, RColorBrewer, igraph, transport, pracma,
cluster, Rtsne, destiny, Seurat, RANN, ggplot2, maptree,
pheatmap, scatterplot3d, VGAM, methods, grDevices, graphics,
stats, utils, cowplot, S4Vectors, BiocGenerics,
SummarizedExperiment, Biobase, phateR, reticulate
survival, limma, gplots, Category, AnnotationDbi, hopach,
biomaRt, GSEABase, genefilter, xtable, annotate, mgcv,
hgu133a.db, ellipse
utils, Biobase (>= 2.5.5), MASS, methods
stats, impute, pcaMethods, missForest, ggplot2, methods,
SummarizedExperiment, S4Vectors, matrixStats, grDevices,
reshape2, utils
Biobase, stats, dplyr, tidyr, ggplot2, ggrepel, gridExtra
methods, cluster, stats, limma, CoGAPS, NMF, ROCR, ggalluvial,
RColorBrewer, dplyr, reshape2, viridis, scales, ggplot2
AnnotationDbi, AnnotationHub, BiocFileCache, cluster,
colourpicker, data.table, digest, dplyr, DT (>= 0.2), edgeR,
fastICA, fastmatch, ggplot2, ggrepel, graphics, grDevices,
highcharter (>= 0.5.0), htmltools, httr, jsonlite, limma,
pairsD3, plyr, Rcpp (>= 0.12.14), recount, Rfast, R.utils,
reshape2, shinyjs, stringr, stats, SummarizedExperiment,
survival, tools, utils, XML, xtable, methods, org.Hs.eg.db
Biostrings, graphics, gtools, methods, stats, utils, HMMcopy,
rtracklayer, BSgenome, GenomicRanges, Rsamtools, IRanges,
limma, GenomeInfoDb, BiocGenerics, grDevices, zoo,
BiocParallel, KernSmooth, MASS
httr, utils, XML, rjson, data.table, tidyr
methods, graphics, utils, stats, Rdpack (>= 0.7)
dplyr, ggplot2, magrittr, tidyr, SummarizedExperiment
phyloseq, KernSmooth, reshape2, ggplot2, stats, methods, MASS,
graphics, grDevices
BiocGenerics, biomaRt, circlize, graphics, grDevices, methods,
rtracklayer, S4Vectors, stats, utils
BiocStyle (>= 2.5.19), derfinder (>= 1.2.5), DEFormats,
DESeq2, GenomeInfoDb, GenomicRanges, knitcitations (>= 1.0.1),
knitr (>= 1.6), knitrBootstrap (>= 0.9.0), methods, RefManageR,
rmarkdown (>= 0.9.5), S4Vectors, SummarizedExperiment, utils
AnnotationDbi, AnnotationHub, Biostrings, DBI, GenomicRanges,
Gviz, IRanges, RCy3, RSQLite, S4Vectors, methods, stats, utils,
BiocFileCache
httr, stringi, rsvg, magick, data.table, Biostrings, utils
dplyr, ggplot2, hash, methods, rhdf5, rlang, stats, S4Vectors,
tidyr, tools, yaml
AnnotationDbi, BiocGenerics, Biostrings, BSgenome, EDASeq,
GenomicAlignments, GenomicFeatures, GenomeInfoDb, IRanges,
methods, motifStack, rtracklayer, Rsamtools, RUVSeq, Rsubread,
S4Vectors, XVector, ggplot2, ggfittext, scales, ggrepel, utils,
cluster, stats, graphics, grid
GOSemSim, AnnotationDbi, GO.db, pheatmap, ggplot2, ggrepel,
treemap, tm, wordcloud, shiny, grDevices, grid, stats, methods
ggplot2, reshape2, MASS, RColorBrewer, gridExtra,visNetwork,
gplots, umap, htmlwidgets, S4Vectors, BiocGenerics, grDevices,
stats, utils, graphics
rJava, Biostrings, IRanges, utils, stats, cluster, binom
SingleCellExperiment, SummarizedExperiment, Seurat, MASS,
zinbwave, stats, copula, ggplot2, DESeq2, utils, grid, methods,
Matrix
S4Vectors, limma, ggraph, igraph, methods, cluster,
minpack.lm, mixtools, BiocParallel, proxy, proxyC, Matrix,
ggplot2, hopach, diptest, mgcv, stats, graphics, statmod
igraph, Matrix, matrixStats, BiocParallel, BiocNeighbors,
BiocSingular, SummarizedExperiment, SingleCellExperiment,
scran, scater, data.table, dplyr, ggplot2, randomForest,
graphics, methods, stats, DelayedArray
S4Vectors (>= 0.24.3), SingleCellExperiment, Matrix,
SummarizedExperiment, IRanges, methods, stats, BiocParallel,
reshape, ggplot2, igraph, grDevices, ggforce, graphics
BiocParallel, BiocSingular, cluster, DelayedArray,
DelayedMatrixStats, distr, dplyr, igraph, M3Drop (>= 1.9.4),
parallel, pdist, proxy, Rcpp (>= 0.12.18), RcppEigen (>=
0.3.3.4.0), ruv, S4Vectors (>= 0.23.19), SingleCellExperiment
(>= 1.7.3), SummarizedExperiment
stats, methods, assertthat, tibble, dplyr, purrr, stringr,
Rdpack, matrixStats, BiocParallel, elasticnet, sparsepca,
cluster, kernlab, origami
Rhtslib, biomaRt, GGally, MASS, mclust, Rcpp (>= 0.11.3),
reshape, BiocGenerics, robustbase, scales, utils, stats,
S4Vectors, SummarizedExperiment, AnnotationDbi, org.Hs.eg.db,
org.Mm.eg.db, stringr, rtracklayer, hash, dplyr, GenomicRanges,
magrittr, glue (>= 1.3.0), rlang, scater (>= 1.11.0)
methods, BiocGenerics, S4Vectors, GenomicRanges,
SummarizedExperiment, ExperimentHub
GSEABase, Biobase, SingleCellExperiment, BiocStyle, plotly,
tagcloud, rmarkdown, Rcpp, grDevices, graphics, utils, knitr,
S4Vectors, SummarizedExperiment, RColorBrewer, nnTensor,
methods, scales, msigdbr, schex, tibble, ggplot2, igraph
BiocParallel, Rtsne, grDevices, graphics, stats
methods, RSQLite, igraph, S4Vectors, plotly, reactome.db,
AnnotationDbi, SummarizedExperiment, SingleCellExperiment,
nnTensor, rTensor, abind, plotrix, heatmaply, tagcloud,
rmarkdown, BiocStyle, knitr, AnnotationHub, MeSHDbi, grDevices,
graphics, stats, utils, outliers, Category, meshr, GOstats,
ReactomePA, DOSE, crayon, checkmate, BiocManager, visNetwork,
schex, ggplot2
BiocGenerics, SummarizedExperiment, Matrix, ggbeeswarm, rlang,
grid, DelayedArray, DelayedMatrixStats, methods, S4Vectors,
stats, utils, viridis, Rcpp, BiocNeighbors, BiocSingular,
BiocParallel
hexbin, stats, methods, cluster, dplyr, entropy, ggforce,
scales, grid, concaveman
SummarizedExperiment, S4Vectors, IRanges, BiocGenerics,
BiocParallel, Rcpp, stats, methods, utils, Matrix, scater,
edgeR, limma, BiocNeighbors, igraph, statmod, DelayedArray,
DelayedMatrixStats, BiocSingular, dqrng
data.table, GenomicAlignments, GenomicFeatures, GenomicRanges,
Rsamtools, ShortRead, parallel, plyr, BiocGenerics,
BiocParallel, S4Vectors, AnnotationDbi, Biostrings, methods,
ggplot2, ggthemes, scales, GenomeInfoDb, stringdist, ggbio,
rtracklayer, SingleCellExperiment, SummarizedExperiment,
Rsubread
glmpca (>= 0.2.0), Matrix, SingleCellExperiment,
SummarizedExperiment
BiocParallel, grDevices, utils, illuminaio, MASS,
GenomicRanges, IRanges, grid, preprocessCore, stats, S4Vectors,
randomForest, wheatmap, ggplot2, parallel, matrixStats,
DNAcopy, HDF5Array, SummarizedExperiment
httr, jsonlite, yaml, objectProperties, stringr, S4Vectors,
docopt, curl, uuid, data.table
methods, stats, graphics, ggplot2, grDevices, ggrepel,
GSEABase, plotly, tidyr, plyr, magrittr, reshape, edgeR,
RColorBrewer, Biobase, BiocParallel, SummarizedExperiment,
matrixStats, reshape2, S4Vectors
R6, httr, rlang, purrr, jsonlite, assertthat, data.table,
Matrix, magrittr, methods, stringr, stats, IRanges,
GenomicRanges, SummarizedExperiment
Rcpp, Matrix, MatrixGenerics, matrixStats, methods
methods, glmnet, huge, stats, graphics, utils
shiny, golem, ggplot2, cowplot, plotly, viridisLite,
shinyWidgets, Polychrome, sessioninfo, grid, grDevices,
methods, AnnotationHub, utils, png, scater, DT, ExperimentHub,
RColorBrewer, SummarizedExperiment, stats, graphics, S4Vectors,
IRanges, fields, benchmarkme
ggplot2, class, concaveman, grid, BiocParallel, spatstat,
lmerTest, BiocGenerics, S4Vectors, lme4, methods, mgcv,
pheatmap, purrr, rlang, grDevices, IRanges, stats
akima, BiocGenerics, BiocParallel, checkmate (>= 2.0.0),
edgeR, fitdistrplus, ggplot2, locfit, matrixStats, methods,
scales, scater (>= 1.15.16), stats, SummarizedExperiment,
utils, crayon, S4Vectors
ggplot2, ggthemes, grid, gridExtra, methods, scales, sp, stats
methods, ontologyIndex, datasets, graphics, stats, utils,
knitr, SummarizedExperiment, S4Vectors
ape, MASS, grDevices, graphics, stats, utils, methods
matrixStats, stats, graphics, utils, limma, edgeR
GenomicRanges, GenomicFeatures (>= 1.31.3),
SummarizedExperiment, VariantAnnotation (>= 1.25.11), rjson,
ggplot2, grid, limma, edgeR, DESeq2, GOstats, GO.db, annotate,
pheatmap, batchtools, yaml, stringr, assertthat, magrittr, DOT,
rsvg
stringr, S4Vectors, methods, BiocGenerics, IRanges, XVector,
Biostrings, Modstrings, ggplot2, scales
Biostrings, BiocGenerics, stringr, xml2, S4Vectors, methods,
httr, IRanges, utils
methods, stringr, BiocGenerics, Biostrings, Structstrings,
S4Vectors, IRanges, XVector, GenomeInfoDb, rtracklayer,
BSgenome, Rsamtools
tibble, readr, dplyr, magrittr, tidyr, rlang, purrr,
preprocessCore, stats, parallel, utils, lifecycle
dplyr, tidyr, tibble, purrr, magrittr, ggplot2, stringr,
ggrepel, propr, lmtest
mgcv, edgeR, SingleCellExperiment, SummarizedExperiment,
slingshot, magrittr, RColorBrewer, BiocParallel, Biobase,
pbapply, ggplot2, princurve, methods, S4Vectors, tibble, dplyr,
monocle, igraph, clusterExperiment
BiocGenerics (>= 0.26.0), Biostrings (>= 2.48.0), dplyr (>=
0.7.6), GenomicRanges (>= 1.32.6), ggplot2 (>= 3.0.0),
ggseqlogo (>= 0.1), grDevices, gridExtra (>= 2.3), methods,
parallel, Rcpp (>= 0.12.18), scales (>= 1.0.0), stats,
TFMPvalue (>= 0.0.8), utils
RSQLite, RMySQL, lassopv, randomForest, vbsr, xgboost,
BiocParallel, RPostgreSQL, methods, DBI, BSgenome,
BSgenome.Hsapiens.UCSC.hg38, BSgenome.Hsapiens.UCSC.hg19,
BSgenome.Mmusculus.UCSC.mm10, SNPlocs.Hsapiens.dbSNP150.GRCh38,
org.Hs.eg.db, Biostrings, GenomicRanges, biomaRt, AnnotationDbi
gridExtra, methods, dtw, class, kmlShape, graphics, cluster,
RColorBrewer, grDevices, knitr, rmarkdown, prettydoc, grid,
ggplot2, latex2exp, stats, SummarizedExperiment, GenomicRanges,
IRanges, S4Vectors
SummarizedExperiment, tximport, jsonlite, S4Vectors, IRanges,
GenomicRanges, AnnotationDbi, GenomicFeatures, ensembldb,
BiocFileCache, AnnotationHub, Biostrings, tibble, GenomeInfoDb,
rappdirs, utils, methods, Matrix
IRanges, GenomicRanges, S4Vectors, Sushi, parallel,
matrixStats, GenomicAlignments, GenomeInfoDb, Rsamtools,
cluster, stats, graphics, methods
methods, utils, stats, assertthat, S4Vectors, DelayedArray,
DelayedMatrixStats, BiocParallel, BiocGenerics, limma, dplyr,
purrr, ggplot2, scales, reshape2, RhpcBLASctl
mzR (>= 2.19.5), BiocGenerics, ProtGenerics (>= 1.17.2),
lattice, RColorBrewer, plyr, RANN, MassSpecWavelet (>= 1.5.2),
S4Vectors, robustbase, IRanges, SummarizedExperiment
ArgumentCheck, BiocParallel, data.table, DrImpute, kernlab,
MASS, Matrix, methods, rsvd, S4Vectors, SAVER,
SingleCellExperiment, stats, SummarizedExperiment, utils
stats, MASS, nloptr, Rdpack, phyloseq, microbiome
BiocParallel, ggplot2, glmnet, grDevices, gridExtra, methods,
mvtnorm, PepsNMR, plyr, quadprog, ropls, stats,
SummarizedExperiment, utils, Matrix, zoo
GenomicRanges, GenomicFeatures, BiocGenerics, IRanges,
GenomicAlignments, Gviz, S4Vectors, Rsamtools, BiocStyle,
igraph, htmltools, data.table, UpSetR, tidyr, DT, MASS, grid,
graphics
methods, DT, shiny, bigrquery, shinytoastr, DBI, magrittr,
dplyr, lubridate, plotly, ggplot2
AnVIL, httr, rmarkdown, whisker, tools, utils, stats,
stats, utils, methods, futile.logger, jsonlite, httr, curl,
rapiclient (>= 0.1.3), tibble, tidyselect, rlang, BiocManager
GenomicFeatures, Rsamtools, rtracklayer, BiocGenerics,
jsonlite, BiocManager, biocViews, AnnotationDbi, Biobase,
Biostrings, DBI, GenomeInfoDb (>= 1.15.4), OrganismDbi,
RSQLite, AnnotationForge, futile.logger (>= 1.3.0), XML, RCurl
Biobase, BiocGenerics, coda, cowplot, ggExtra, ggplot2,
graphics, grDevices, MASS, methods, Rcpp (>= 0.11.3),
S4Vectors, scran, stats, stats4, SummarizedExperiment, viridis,
utils, Matrix, matrixStats, assertthat, reshape2, BiocParallel,
hexbin
methods, utils, stats, matrixStats, BiocGenerics, S4Vectors,
IRanges, XVector (>= 0.29.3), GenomeInfoDb, GenomicRanges,
Biostrings, Rsamtools, rtracklayer
Rcpp (>= 1.0.4.6), stats, purrr, scater, scran,
SummarizedExperiment, coda, rhdf5, S4Vectors, Matrix,
assertthat, mclust, RCurl, DirichletReg, xgboost, utils,
ggplot2, scales, BiocFileCache
GenomicFeatures, rhdf5, tximport, Biostrings, rtracklayer,
biomaRt, jsonlite, methods, grDevices, graphics, stats, utils,
rslurm
stats, utils, grDevices, lattice, BiocParallel, glmnet, rms,
precrec, nsprcomp, ranger, e1071, ggplot2, vioplot, CMplot,
imager, topGO, xlsx
BiocParallel, RJSONIO, whisker, yaml, pheatmap, ggplot2, plyr,
utils, stats, RColorBrewer, Hmisc, psych, knitr, rmarkdown,
markdown
httr, whisker, readr, dplyr, utils, methods, memoise
BiocGenerics, GenomicRanges, RCurl, S4Vectors, methods, tools
methods, tibble, utils, rlang, plyr, S4Vectors, BiocIO,
AnnotationDbi, KEGGREST, ontologyIndex, tidyr
BiocGenerics, S4Vectors, Matrix, methods, utils, DelayedArray,
BiocParallel, irlba, rsvd, Rcpp, beachmat
data.table, lsa, methods, S4Vectors, utils, BiocFileCache
beanplot, BiocGenerics, BiocParallel, BSgenome, data.table,
DelayedArray, formula.tools, GenomeInfoDb, GenomicAlignments,
GenomicRanges (>= 1.37.16), ggplot2 (>= 2.2.0), gtools, IRanges
(>= 2.18.0), KernSmooth, memoise, plyr, Rsamtools, reshape,
rtracklayer, S4Vectors (>= 0.27.5), som, stringdist, stringi,
SummarizedExperiment, utils, vegan, VGAM
XML, RCurl, RBGL, parallel, foreach, doParallel, openxlsx,
igraph, circlize, graph, stats, utils, grDevices, graphics,
methods, biomaRt, rJava
BiocGenerics, S4Vectors, grDevices, stats, utils, NOISeq,
IRanges, Rsamtools, exomeCopy, foreach, ggplot2, plyr,
GenomeInfoDb, gplots, reshape2, stringr, testthat, graphics,
methods, shiny, shinyFiles, shinyjs, grid, openxlsx
BiocGenerics, BiocParallel, GDSArray, GenomeInfoDb, IRanges,
S4Vectors, SNPRelate, SummarizedExperiment, data.table, edgeR,
gdsfmt, grDevices, lattice, limma, methods, plyr, qqman,
rappdirs, reshape2, stats, utils
methods, Rcpp, data.table, RColorBrewer, scales, grid, plyr,
knitr, abind, clue, grDevices, utils, pdist, magrittr,
reshape2, dplyr, tidyr, rlang, BiocStyle, rmarkdown, foreach,
coda
parallel, data.table, seqinr, S4Vectors (>= 0.9.25), IRanges,
BSgenome, BiocParallel, hash, methods,reticulate,rhdf5
dplyr, tibble, stringr, Biostrings, Rcpp, reshape2, methods,
rlang (>= 0.3), purrr, Matrix, S4Vectors, BiocGenerics, tidyr,
forcats, progress, stats, utils
prettydoc,Hmisc,globaltest,sva,illuminaio,rmarkdown,IlluminaHumanMethylation450kmanifest,IlluminaHumanMethylationEPICanno.ilm10b4.hg19,
limma, DNAcopy, preprocessCore,impute, marray, wateRmelon,
plyr,goseq,missMethyl,kpmt,ggplot2,
GenomicRanges,qvalue,isva,doParallel,bumphunter,quadprog,shiny,shinythemes,plotly
(>= 4.5.6),RColorBrewer,dendextend, matrixStats,combinat
AnnotationDbi, BiocGenerics (>= 0.1.0), Biostrings (>=
2.47.6), DBI, dplyr, ensembldb, GenomeInfoDb,
GenomicAlignments, GenomicFeatures, RBGL, Rsamtools,
SummarizedExperiment, VennDiagram, biomaRt, ggplot2, grDevices,
graph, graphics, grid, KEGGREST, matrixStats, multtest,
regioneR, rtracklayer, stats, utils
shiny, colourpicker, shinyjs, rtracklayer, shinyFiles,
shinyhelper, shinycssloaders, Matrix, plotly, shinydashboard,
colorRamps, kableExtra, viridis, batchelor, BiocParallel,
parallel, Rsamtools, ggplot2, qualV, stringdist, fs, DT, scran,
scater, ConsensusClusterPlus, Rtsne, dplyr, tidyr,
GenomicRanges, IRanges, irlba, rlist, umap, tibble, methods,
jsonlite, edgeR, stats, graphics, grDevices, utils, S4Vectors,
SingleCellExperiment, SummarizedExperiment, msigdbr
SingleCellExperiment (>= 1.8.0), SummarizedExperiment (>=
1.16.0), Matrix, mixtools, cowplot, ggplot2, gridExtra, grid,
dbscan, propr, uwot, Rtsne, S4Vectors (>= 0.24.0), igraph,
scales, scran (>= 1.14.6), graphics, methods, stats, utils,
reshape2, ggridges, randomForest, pheatmap, ggraph, grDevices,
rhdf5, rlang
circlize (>= 0.4.5), GetoptLong, colorspace, clue,
RColorBrewer, GlobalOptions (>= 0.1.0), parallel, png, Cairo,
digest, S4Vectors (>= 0.26.1), IRanges, matrixStats
Biobase, S4Vectors, SummarizedExperiment, piano, BiocParallel,
BiocGenerics, methods, stats, utils, graphics, grDevices, lsa,
data.table, crayon
cytolib(>= 2.1.18), flowCore (>= 1.99.10), flowWorkspace (>=
4.1.8), openCyto (>= 1.99.2), XML, data.table, jsonlite, RBGL,
Rgraphviz, Biobase, methods, graph, graphics, utils, base64enc,
plyr, dplyr, grDevices, ggcyto (>= 1.11.4), yaml,
lattice, stats, corpcor, RUnit, tibble, RcppParallel, xml2
Biobase, MSnbase, tibble, RColorBrewer,stats,preprocessCore,
Cairo,png, lattice,reshape2,gplots,pcaMethods,ggplot2,
limma,knitr,tmvtnorm,norm,impute, stringr, grDevices, graphics,
openxlsx, utils, cp4p (>= 0.3.5), scales, Matrix, vioplot,
imp4p (>= 0.8), forcats, methods, highcharter, DAPARdata (>=
1.18.0), siggenes, graph, lme4, readxl, clusterProfiler, dplyr,
tidyr,AnnotationDbi, tidyverse, vsn, FactoMineR, factoextra,
multcomp, purrr, visNetwork, foreach, parallel, doParallel,
igraph, dendextend, Mfuzz, apcluster, diptest, cluster
Rcpp (>= 1.0.2),GenomicFeatures, parallel, foreach, S4Vectors,
doParallel, Rsamtools (>= 1.31.2), GenomicAlignments,
heatmaply, data.table, stats, ggplot2, GenomicRanges, IRanges,
plyr, plotly, utils,viridis
methods, matrixStats (>= 0.56.0), sparseMatrixStats, Matrix,
S4Vectors (>= 0.17.5), IRanges, HDF5Array (>= 1.17.2),
BiocParallel
RColorBrewer, amap, gplots, grDevices, limma,
GenomicAlignments, locfit, stats, utils, IRanges, lattice,
systemPipeR, tools, Rcpp, dplyr, ggplot2, BiocParallel,
parallel, S4Vectors, Rsamtools (>= 2.0), DESeq2, methods,
graphics, ggrepel, apeglm, ashr, GreyListChIP
grid, TSP, limma, rhdf5, knitr, abind, gplots, igraph,
grDevices, graphics, stats
utils, stats, methods, Matrix, Rcpp, BiocGenerics, S4Vectors,
SummarizedExperiment, BiocParallel, DelayedArray, HDF5Array,
rhdf5, edgeR, R.utils, dqrng, beachmat, scuttle
methods, graphics, BiocGenerics, IRanges (>= 1.13.9),
aroma.light, Rsamtools (>= 1.5.75), biomaRt, Biostrings,
AnnotationDbi, GenomicFeatures, GenomicRanges, BiocManager
gplots, Biobase, GEOquery, limma, arrayQualityMetrics, impute,
RColorBrewer, zoo, igraph, plyr, MASS, RCurl, methods
foreach, doParallel, parallel, stats, survivalROC, glmnet,
rms, survivalsvm, ggplot2, minfi,
IlluminaHumanMethylation450kanno.ilmn12.hg19, survival, utils
AnnotationDbi, BiocFileCache, BiocManager, GSEABase, GO.db,
KEGGREST, KEGGgraph, Rgraphviz, S4Vectors, SPIA, edgeR,
graphite, hwriter, limma, methods, pathview, safe
MASS, e1071, quadprog, parallel, stats, matrixStats, stringr,
locfdr, Matrix
shiny (>= 1.5.0), shinydashboard, DT, cowplot, utils, dplyr,
magrittr, tidyr, ggplot2, stats, methods, rintrojs, scales,
tibble, MASS, limma, S4Vectors, shinyjs
AnnotationDbi, BBmisc, Biobase, BiocGenerics, biomaRt,
BSgenome, cowplot, DelayedArray (>= 0.5.11),
DelayedMatrixStats, extraDistr, generics, GenomeInfoDb,
GenomicAlignments, GenomicFeatures, GenomicRanges, IRanges,
grDevices, ggplot2, ggrepel, HDF5Array, matrixStats, methods,
OUTRIDER, pcaMethods, pheatmap, plotly, PRROC, RColorBrewer,
rhdf5, Rsubread, R.utils, S4Vectors, stats, tibble, tools,
utils, VGAM
BiocStyle, RUnit, SummarizedExperiment, ExperimentHub (>=
0.99.6), AnnotationHub, DESeq2
foreach, doParallel, GenomicRanges, IRanges, Rsamtools,
parallel, S4Vectors
Biobase, BiocGenerics, GWASTools, gdsfmt, GenomicRanges,
IRanges, S4Vectors, SeqArray, SeqVarTools, SNPRelate,
data.table, foreach, graphics, grDevices, igraph, Matrix,
methods, reshape2, stats, utils
limma, genefilter, Biobase, BiocGenerics (>= 0.35.3),
S4Vectors, IRanges, Matrix, AnnotationDbi, digest,
GenomicRanges, SummarizedExperiment
AnnotationDbi, AnnotationHub, BiocFileCache, BiocParallel,
edgeR, EnrichmentBrowser, ExperimentHub, grDevices, graphics,
KEGGandMetacoreDzPathwaysGEO, KEGGdzPathwaysGEO, methods,
S4Vectors, stats, utils
dplyr, tidytext, dendextend, tibble, ggplot2, ggwordcloud,
stringr, gridExtra, rlang, grDevices, graphics, stats, methods
methods, stats, utils, graphics, BiocGenerics, S4Vectors,
IRanges, Biobase, SummarizedExperiment, GSEABase, parallel,
BiocParallel
cluster, doParallel, foreach, matchingR, nsga2R, survival,
proxy, stats, methods,
graphics, stats, utils, methods, gdsfmt, DBI, RSQLite,
GWASExactHW, DNAcopy, survival, sandwich, lmtest, logistf,
quantsmooth, data.table
AnnotationDbi, biomaRt (>= 2.45.8), BiocGenerics, Biostrings,
DBI, FField, GenomicFeatures, GenomicRanges (>= 1.25.4),
ggplot2 (>= 2.1.0), gridExtra (>= 2.0.0), gtable, gtools,
IRanges (>= 2.7.5), plyr (>= 1.8.3), reshape2, Rsamtools,
scales, viridis, data.table, BSgenome, GenomeInfoDb,
VariantAnnotation
snpStats, mvtnorm, Rsamtools, igraph, kernlab, FactoMineR,
IRanges, GenomicRanges, data.table,grDevices, graphics,stats,
utils, methods, GGtools
AnnotationDbi, bs4Dash, colorspace, ComplexHeatmap,
dendextend, DESeq2, dplyr, DT, dynamicTreeCut, expm, ggforce,
ggplot2, ggrepel, GO.db, graphics, grDevices, grid, igraph,
matrixStats, methods, plotly, RColorBrewer, rintrojs, rlang,
rmarkdown, S4Vectors, scales, shiny, shinycssloaders,
shinyWidgets, stats, SummarizedExperiment, tidyr, tools, utils,
viridis, visNetwork
grDevices, stats, utils, plyr, gridExtra, lsr, parallel,
ggbio, S4Vectors, IRanges, GenomeInfoDb, Rdpack
stats, utils, XML, Biobase, BiocManager, BiocFileCache,
IRanges (>= 2.3.23), Biostrings, GenomeInfoDb, AnnotationHub,
rhdf5, DelayedArray, HDF5Array
htmlwidgets, edgeR, DESeq2, limma, SummarizedExperiment,
stats, jsonlite, methods, S4Vectors
BiocFileCache, googleAuthR, httr, methods, readr, rlang, utils
BiocFileCache, HCAMatrixBrowser, S4Vectors, LoomExperiment,
vctrs, curl, httr, jsonlite, methods, plyr, readr, rlang,
tibble, tidygraph, utils, xml2
BiocFileCache, digest, dplyr, httr, jsonlite, Matrix, methods,
progress, rlang, SingleCellExperiment, stats, utils
utils, stats, scales, stringr, tibble, shiny, data.table
edgeR, DESeq2, BiocParallel, Biobase, utils, stats, grDevices,
graphics, methods
Matrix, parallel, foreach, aricode, LiblineaR, SparseM,
ggplot2, cowplot, RSpectra, umap, Rtsne, fastcluster,
parallelDist, cluster, dendextend, DescTools, plyr, scales,
pheatmap, reshape2, dplyr, doRNG, SingleCellExperiment,
SummarizedExperiment, S4Vectors, methods, stats, doSNOW, utils
utils, reactable, htmltools, dplyr, readr, tidyr, purrr,
rlang, forcats, tibble, BiocParallel, stringr, fs, zip,
lubridate, lifecycle, ggplot2, ggrepel, stats, upsetjs, psych,
grDevices, data.table, readxl, tools
methods, Matrix, Rcpp, BiocGenerics, S4Vectors (>= 0.27.12),
IRanges, GenomeInfoDb
methods, BSgenome, plyr, reshape2, gridExtra, Biostrings (>=
2.50.0), IRanges, GenomicRanges, DRIMSeq, RColorBrewer,
rtracklayer, VennDiagram, DBI, grDevices, graphics, stats,
utils, GenomeInfoDb, grid, tximport (>= 1.7.1), tximeta (>=
1.7.12), edgeR, futile.logger, stringr, dplyr, magrittr, readr,
tibble, XVector, BiocGenerics, RCurl
stringr, methods, ggplot2 (>= 3.3.0), jsonlite, kernlab,
rlist, rmarkdown, reshape2, e1071, randomForest, caret, XML,
praznik, R.utils, httr, sva (>= 3.30.1), edgeR (>= 3.24.3),
limma (>= 3.38.3), grDevices, graphics, stats, utils, Hmisc (>=
4.4.0), gridExtra
Biobase, clusterProfiler (>= 3.16.1), enrichplot, gridExtra,
ggplot2, ggrepel, grDevices, grid, reshape2, stats, utils
AnnotationDbi, Biobase, BiocParallel, compiler, data.table,
edgeR, futile.logger, ggdendro, ggplot2, GO.db, GOstats, graph,
graphics, grDevices, grid, GSEABase, ismev, jsonlite, limma,
matrixStats, org.Hs.eg.db, RBGL, reshape2, Rgraphviz, stats,
utils, vegan
rhdf5, dplyr, tidyr, reshape2, pheatmap, ggplot2, methods,
GGally, RColorBrewer, cowplot, ggrepel, reticulate, HDF5Array,
grDevices, stats, magrittr, forcats, utils, corrplot,
DelayedArray, Rtsne, uwot, basilisk
stats, utils, RCy3, stringr, graphics, grDevices, RUnit,
BiocParallel, igraph
SummarizedExperiment, S4Vectors, pcaMethods (>= 1.24.0), VIM,
crmn, preprocessCore, sva, dplyr (>= 0.7), tidyr, tibble (>=
1.2), magrittr, rlang, stats, stringr, methods, ddpcr
MSnbase (>= 1.12.1), mzID (>= 1.3.5), R.cache, foreach,
doParallel, parallel, methods, iterators, data.table, Biobase,
ProtGenerics, reshape2, dplyr, mzR, BiocStyle, msmsTests,
ggplot2, RUnit, BiocGenerics, Biostrings, purrr, rlang,
stringr, tibble, AnnotationHub, AnnotationDbi, xtable
data.table, log4r, methods, checkmate, utils
broom, dplyr, rlang, stats, tibble, tidyr, tidyselect,
Biostrings
dplyr, gridExtra, stringr, reshape2, stats, utils, ggplot2,
grDevices, graphics, MSstatsTMT, Rcpp
robustbase, biglm, pcaPP, edgeR, metagenomeSeq, lpsymphony,
pbapply, car, dplyr, vegan, chemometrics, ggplot2, pheatmap,
logging, data.table, lmerTest, hash, optparse, MuMIn,
grDevices, stats, utils, glmmTMB, MASS, cplm, pscl
methods, data.table, Biostrings, dplyr, tidyr (>= 1.0.0), ape
(>= 5.4.1), ggrepel, pracma, ggridges, AnnotationDbi, IRanges,
circlize, cowplot, mclust, phangorn, ComplexHeatmap (>= 1.9.3),
ggplot2, RColorBrewer, grDevices, stats, utils, S4Vectors
grDevices, graphics, methods, stats (>= 3.4), utils (>= 3.4),
Matrix (>= 1.2), matrixStats (>= 0.54), beanplot (>= 1.2),
gplots (>= 3.0.1), RColorBrewer (>= 1.1.2),
SummarizedExperiment (>= 1.12), SingleCellExperiment, igraph,
dplyr, tidyr, tibble, ggplot2
dplyr, plyr, GenomicRanges, SummarizedExperiment,
DelayedArray, ggplot2, ggpubr, tibble, tidyr, S4Vectors,
sesameData, stringr, readr, methods, stats, Matrix, MASS,
rlang, pscl, IRanges, sfsmisc, progress
ExperimentHub, HDF5Array, rhdf5, GenomeInfoDb, S4Vectors,
GenomicRanges, stats, IRanges, utils
ape, plyr, tidyr, ggplot2, phyloseq, magrittr, dplyr,
Biostrings, ggrepel, vegan, reshape, zoo, ggtree, tidytree,
gtools, MASS, methods, rlang, tibble, grDevices, stats, utils,
coin, ggsignif, Rmisc, patchwork, ggstar
methods, BiocGenerics, MatrixGenerics, Biobase, S4Vectors (>=
0.23.18), IRanges, GenomeInfoDb, GenomicRanges (>= 1.17.16),
SummarizedExperiment (>= 1.15.4), oligoClasses, DNAcopy, ff,
foreach, matrixStats, lattice, data.table, grid, stats, utils
httr, curl, GenomicRanges, dplyr, ggplot2, reshape2, scales,
gtools, tidyr, data.table, jsonlite, rlist, GenomeInfoDb,
methods, biomaRt, stats, IRanges
Matrix, ggplot2, MultiAssayExperiment, ropls, graphics,
methods
S4Vectors, SummarizedExperiment, bsseq, forcats, assertthat,
AnnotationDbi, Rcpp, dplyr, data.table, e1071, fs,
GenomicRanges, ggthemes, glue, patchwork, purrr, readr, rlang,
RSQLite, Rsamtools, scales, stats, stringr, tibble, tidyr,
utils, zlibbioc
Seurat, SingleCellExperiment, SummarizedExperiment,
SeuratObject, ks, Matrix, stats, methods
methods, SingleCellExperiment, parallel, irlba, Matrix,
DelayedArray, BiocSingular, stats
S4Vectors (>= 0.21.3), GenomeInfoDb (>= 1.15.5),
GenomicFeatures (>= 1.31.10), AnnotationDbi (>= 1.45.0),
rtracklayer (>= 1.43.0), Rcpp (>= 1.0.0), data.table (>=
1.11.8), Biostrings (>= 2.51.1), biomartr, BiocGenerics (>=
0.29.1), BiocParallel (>= 1.19.0), BSgenome, DESeq2 (>=
1.24.0), ggplot2 (>= 2.2.1), gridExtra (>= 2.3), cowplot (>=
1.0.0), GGally (>= 1.4.0), methods (>= 3.6.0), R.utils, RCurl,
Rsamtools (>= 1.35.0), utils, stats, SummarizedExperiment (>=
1.14.0), fst (>= 0.9.2), xml2 (>= 1.2.0), tools
dplyr, ggplot2, forcats, tibble, gridExtra, magrittr, readr,
tidyselect, grid, stats, stringr
RSQLite, S4Vectors, GenomeInfoDb, IRanges, GenomicRanges,
GenomicFeatures, AnnotationDbi, rlang, methods, tools, utils,
BiocFileCache, DBI, dbplyr, tibble
lattice, grDevices, cowplot, methods, reshape2, stats, Matrix,
DelayedMatrixStats, DelayedArray, BiocSingular, BiocParallel,
Rcpp, dqrng
Biobase, broom, caret, clisymbols, ComplexHeatmap, crayon,
dplyr, e1071, ggcorrplot, ggplot2, ggraph, ggrepel, glasso (>=
1.11), glmnet, impute, knitr, limma, magrittr, mixOmics,
MSnbase (>= 2.12), patchwork, plotly, qpdf, randomForest,
RankProd (>= 3.14), reshape2, rmarkdown, tibble, tidyr, vegan
circlize, ComplexHeatmap, flowCore, flowWorkspace, ggplot2,
grDevices, grid, gridExtra, methods, plyr, stats, utils
Biobase, S4Vectors, SummarizedExperiment, BiocParallel,
ggplot2, magicaxis, RColorBrewer, parallel, caTools, methods,
downloader, stats, utils, graphics, grDevices, reshape2,
jsonlite, data.table
ruv, e1071, calibrate, dendextend, limma, pcaMethods, stats,
RColorBrewer, circlize, dplyr, igraph, pheatmap,
preprocessCore, tidyr, rlang, graphics, grDevices, utils
DAPAR (>= 1.22.8), DAPARdata (>= 1.20.0), rhandsontable,
data.table, shinyjs, DT, shiny, shinyBS, shinyAce, highcharter,
htmlwidgets, webshot, R.utils, shinythemes, XML,later,
rclipboard, shinycssloaders, future, promises, colourpicker,
BiocManager, shinyjqui,shinyTree, shinyWidgets, sass, tibble
methods, stats, utils, S4Vectors, IRanges,
SummarizedExperiment, BiocGenerics, ProtGenerics (>= 1.19.3),
AnnotationFilter, lazyeval, Biobase, MsCoreUtils (>= 1.1.2),
methods, parallel, ggplot2, pheatmap, clValid, igraph,
data.table, reshape2, Hmisc, RCurl, BiocGenerics, S4Vectors,
IRanges (>= 2.13.12), GenomeInfoDb, GenomicRanges (>= 1.31.8),
ggbio
RColorBrewer, alabama, edgeR, reshape2, tseries, VGAM, ggplot2
(>= 2.2.1.9000), nleqslv, phyloseq, tensor, MASS, stats,
grDevices, graphics, methods
grid, gdata, MASS, genefilter, methods, fields, utils,
lattice, Biobase
methods, stats, grDevices, matrixStats, BiocGenerics,
Biostrings (>= 2.57.2), BiocParallel, GenomicFeatures,
GenomicAlignments, GenomeInfoDb, rtracklayer, Rsamtools,
BSgenome, RColorBrewer, colorRamps, ggplot2, Gviz (>= 1.31.0),
reshape2, graphics, ROCR
BiocGenerics, data.table, DelayedArray, GenomicRanges,
GenomeInfoDb, httr, limma, methods, RaggedExperiment, RCircos,
RCurl, RJSONIO, S4Vectors (>= 0.23.10), stats, stringr,
SummarizedExperiment, survival, TCGAutils (>= 1.9.4), XML
SummarizedExperiment, S4Vectors, Biobase, parallel,
BiocParallel, RColorBrewer, caTools, magicaxis, methods,
reshape2, scales, grDevices, graphics, stats, utils,
assertthat, matrixStats, downloader
BiocGenerics, GenomeInfoDb, IRanges, Matrix, MatrixGenerics,
methods, S4Vectors, stats, SummarizedExperiment
randomForest, fgsea, DOSE, BiocParallel, DESeq2, limma, WGCNA,
ggplot2 (>= 2.2.0), methods, reshape2, magrittr
biomaRt,edgeR,heatmap3,matlab,KEGGREST,methods,grDevices,
graphics, stats, utils,Rcpp (>= 0.11.2)
Biobase, methods, ggplot2, pROC, fdrtool, splines, utils,
tibble
Rdpack, grDevices, methods, stats, utils, xml2, rsvg, igraph,
rmarkdown, knitr, SummarizedExperiment, AnnotationDbi, httr,
KEGGREST, bookdown
matrixStats, keras, tensorflow, BiocParallel, igraph, Matrix,
cluster, clusterCrit, psych, glmnet, RhpcBLASctl, stats, utils,
methods, survival
stats, methods, SingleCellExperiment, fitdistrplus, graphics,
edgeR, Hmisc, WGCNA, limma, mvtnorm, phyloseq, utils
data.table, reshape2, ggplot2, stats, grDevices, graphics,
utils, biomaRt, methods
grDevices, graphics, stats, methods, Biobase, BiocGenerics,
gdsfmt, GenomicRanges, IRanges, S4Vectors, GWASExactHW,
logistf, Matrix, data.table,
methods, utils, stats, S4Vectors, BiocGenerics
AnnotationHub, BiocFileCache, BiocGenerics, ExperimentHub,
HCAMatrixBrowser, HDF5Array, S4Vectors, SingleCellExperiment,
SpatialExperiment, SummarizedExperiment, Matrix, methods, utils
methods, Matrix, S4Vectors, DelayedArray, DelayedMatrixStats,
BiocNeighbors, BiocParallel, BiocSingular, stats, utils, Rcpp,
beachmat
nnlasso, nnls, parallel, data.table, Biostrings,
GenomicRanges, IRanges, BSgenome, GenomeInfoDb, ggplot2,
gridExtra, reshape2
logNormReg, grDevices, stats, utils, graphics,
methods, IRanges, MsCoreUtils (>= 1.1.5), graphics, grDevices,
stats, tools, utils, fs
utils, stats, tools, Matrix, BiocGenerics (>= 0.15.3),
S4Vectors (>= 0.27.12), IRanges (>= 2.23.9), GenomeInfoDb (>=
1.13.1), DelayedArray (>= 0.15.10)
dplyr, PRIMME, cluster, Matrix, magrittr, HiCcompare, ggplot2,
tidyr, ggpubr, RColorBrewer, reshape2, cowplot
downloader (>= 0.4), grDevices, biomaRt, dplyr, graphics,
tibble, GenomicRanges, XML (>= 3.98.0), data.table, jsonlite
(>= 1.0.0), plyr, knitr, methods, ggplot2, stringr (>= 1.0.0),
IRanges, rvest (>= 0.3.0), stats, utils, S4Vectors, R.utils,
SummarizedExperiment (>= 1.4.0), TCGAbiolinksGUI.data, readr,
tools, tidyr, purrr, xml2, httr (>= 1.2.1)
methods, dplyr, magrittr, miniUI, shiny, Rsamtools, GSEABase,
rjson, BiocFileCache, DT, httr, readxl
ggplot2, shiny, plyr, grid, fastICA, igraph, combinat, mgcv,
mclust, gplots, methods, stats, Matrix, SummarizedExperiment,
SingleCellExperiment, DelayedArray, S4Vectors
graphics, grDevices, methods, stats, utils, assertthat
biomaRt, clusterProfiler, dplyr (>= 0.8.4), FreqProf, gtools
(>= 3.8.1), gplots, ggdendro, gghighlight, ggplot2, graphics,
grDevices, igraph (>= 1.2.4.2), RCy3, readxl, reshape2,
rWikiPathways, scales, stats, tidyr (>= 1.0.2), stringr (>=
1.4.0)
SummarizedExperiment, S4Vectors, Biobase, BiocParallel,
ggplot2, tibble, dplyr, caTools, downloader, magrittr, methods,
reshape2, tidyr, data.table, assertthat, scales, graphics,
grDevices, parallel, stats, utils, limma
magick, cowplot, scales, GenomicRanges, ShortRead, zoo,
ggplot2, reshape2, regioneR, IRanges, S4Vectors, magrittr,
dplyr, BSgenome, Biostrings, DESeq2, R.utils, Rsamtools,
stringr, Rbowtie2, methods, GenomeInfoDb, GenomicAlignments,
RColorBrewer, utils, grDevices, stats, org.Hs.eg.db, annotate,
TxDb.Hsapiens.UCSC.hg19.knownGene, rlang, GenomicFeatures,
BiocFileCache, rappdirs, fda
MatrixGenerics, Biobase, S4Vectors (>= 0.23.18), IRanges (>=
1.14.0), oligoClasses (>= 1.31.1), foreach, matrixStats,
data.table, grid, lattice, methods, GenomeInfoDb (>= 1.11.4),
crlmm, tools, stats, utils, BSgenome.Hsapiens.UCSC.hg18
utils, DBI, zlibbioc, Biobase, S4Vectors (>= 0.27.12), IRanges
(>= 2.23.9), XVector (>= 0.29.2), Biostrings (>= 2.57.2),
AnnotationDbi (>= 1.27.9), rtracklayer (>= 1.39.7), BSgenome
(>= 1.47.3), GenomicFeatures (>= 1.31.3)
data.table, AnnotationDbi, AnnotationForge, biomaRt,
dendextend, DiagrammeR, DT, dynamicTreeCut, fgsea, GOSemSim,
ggplot2, GO.db, grDevices, heatmaply, htmlwidgets, igraph,
methods, plotly, processx, topGO, RColorBrewer, R.utils,
scales, stats, UpSetR, utils
cowplot, magrittr, GenomeInfoDb, GenomicAlignments,
RColorBrewer, zoo, Rsamtools, S4Vectors, parallel, reshape2,
methods, graphics, stats
BiocGenerics, genefilter, graphics, grDevices, gtools,
methods, stats, utils, mvtnorm, RColorBrewer, GeneMeta,
siggenes
methods, utils, tools, zlibbioc, BiocGenerics, S4Vectors,
IRanges
limSolve, SomaticSignatures, VariantAnnotation, GenomeInfoDb,
reshape2, gridExtra, corrplot, dendextend, GetoptLong,
circlize, gtrellis, doParallel, PMCMR, ggbeeswarm,
ComplexHeatmap, KEGGREST, grDevices, Biostrings,
BSgenome.Hsapiens.UCSC.hg19, magrittr, pracma, dplyr, utils
methods, graphics, grid, Biobase, annaffy, mpm, genefilter,
limma, multtest, glmnet, gplots
methods, Biobase, ROCR, pamr, glmnet, varSelRF, utils,
graphics, stats
stats, methods, S4Vectors, SummarizedExperiment,
SingleCellExperiment, Matrix, tibble, rlang
rmarkdown (>= 2.5), tools, methods, ggplot2, GGally, dplyr,
rjson, shiny, shinydashboard, DT, stats, utils, tximport (>=
1.17.4), cowplot, rlang
Biobase, DBI, xtable, graphics, utils, stats, methods,
BiocGenerics (>= 0.13.8), httr
BSgenome, BiocFileCache, BiocParallel, Rcpp, data.table,
ggplot2, grDevices, graphics, grid, motifStack, rappdirs,
stats, testthat, utils, lifecycle
BiocGenerics, BiocParallel, data.table, dplyr, GenomeInfoDb,
GenomicAlignments, GenomicFeatures, GenomicRanges, stats,
glmnet, Rsamtools, methods, Rcpp
utils, methods, parallel, reticulate, filelock, basilisk.utils
SummarizedExperiment, S4Vectors, BiocGenerics, Rcpp, stats,
methods, utils, igraph, BiocNeighbors, BiocSingular, Matrix,
DelayedArray, DelayedMatrixStats, BiocParallel, scuttle,
ResidualMatrix
methods, DelayedArray (>= 0.15.14), BiocGenerics, Matrix
BiocManager, fs, glue, rlang, styler, usethis (>= 2.0.1)
stats, methods, utils, Matrix, Rcpp, igraph, S4Vectors,
BiocParallel, BiocNeighbors
IRanges (>= 2.23.9), GenomeInfoDb, scales, stats, graphics,
Biobase, locfit, gtools, data.table (>= 1.11.8), S4Vectors (>=
0.27.12), R.utils (>= 2.0.0), DelayedMatrixStats (>= 1.5.2),
permute, limma, DelayedArray (>= 0.15.16), Rcpp, BiocParallel,
BSgenome, Biostrings, utils, HDF5Array (>= 1.15.19), rhdf5
BiocFileCache (>= 1.5.3), digest, dplyr, GenomeInfoDb,
GenomicRanges, httr, IRanges, methods, readr, RaggedExperiment,
RTCGAToolbox (>= 2.19.7), S4Vectors, SummarizedExperiment,
stats, tibble, tidyr, TCGAutils (>= 1.9.4), utils
biomaRt, binr, cowplot, data.table, dplyr, DT, fgsea, ggplot2,
ggrepel, graphics, highcharter, httr, limma, methods, pbapply,
R.utils, readxl, reshape2, rhdf5, scales, shiny, stats, tools,
utils
plyr, foreach, ggplot2, RColorBrewer, grid, scales, gtable,
grDevices, graphics, matrixStats, doParallel, digest, methods,
reshape2, MAST, S4Vectors, data.table, Rcpp, RcppEigen, uwot,
enrichR, stringi, SummarizedExperiment, MCMCprecision, ggrepel,
Rtsne, withr, dendextend, ggdendro, pROC, scater (>= 1.14.4),
scran, SingleCellExperiment, dbscan, DelayedArray, Seurat,
stringr, Matrix, ComplexHeatmap, multipanelfigure, circlize
utils, ExperimentHub, AnnotationHub, AnnotationDbi, S4Vectors,
DelayedArray, DelayedMatrixStats
dplyr, magrittr, readr, rtracklayer, stringr, stringi, DESeq2,
edgeR, GenomicRanges, IRanges, seqinr, R.utils, reshape2,
ggplot2, utils, rlang, S4Vectors, stats, GenomeInfoDb,
universalmotif, AnnotationHub, BSgenome.Hsapiens.UCSC.hg19,
Biostrings, gwascat, BSgenome,
methods, NMF, RColorBrewer, ape (>= 5.0), cluster, stats,
limma, howmany, locfdr, matrixStats, graphics, parallel,
RSpectra, kernlab, stringr, S4Vectors, grDevices, DelayedArray
(>= 0.7.48), HDF5Array (>= 1.7.10), Matrix, Rcpp, edgeR,
scales, zinbwave, phylobase, pracma, mbkmeans
AnnotationDbi, downloader, DOSE (>= 3.13.1), dplyr, enrichplot
(>= 1.9.3), GO.db, GOSemSim, magrittr, methods, plyr, qvalue,
rlang, rvcheck, stats, tidyr, utils
cowplot, dplyr, entropy, fgsea, ggplot2, Matrix, readr, rlang,
scales, stringr, tibble, tidyr, stats, methods,
SingleCellExperiment, SummarizedExperiment, matrixStats,
S4Vectors, proxy, httr
methods, rhdf5, data.table, flowCore, SummarizedExperiment,
matrixStats
grDevices, graphics, grid, stats, utils, ComplexHeatmap (>=
2.5.4), matrixStats, GetoptLong, circlize (>= 0.4.7),
GlobalOptions (>= 0.1.0), clue, parallel, RColorBrewer,
cluster, skmeans, png, mclust, crayon, methods, xml2,
microbenchmark, httr, knitr, markdown, digest, impute, brew,
Rcpp (>= 0.11.0), BiocGenerics, eulerr
tcltk, knitr (>= 1.2), markdown, ROCR, lattice (>= 0.16),
gplots, gtools, gdata, caTools, grid, KernSmooth, MASS,
ggplot2, stringr, modeest, edgeR, limma, vioplot, methods,
utils, stats, grDevices, graphics
ggplot2, ggthemes, grDevices, gridExtra, irlba, Matrix,
methods, MultiAssayExperiment, pals, SingleCellExperiment,
SummarizedExperiment, transport
rmarkdown (>= 2.5), edgeR, DESeq2 (>= 1.16.0), dplyr, tidyr,
ggplot2, grDevices, tools, SummarizedExperiment, genefilter,
DT, GenomeInfoDbData, caTools, randtests, stats, utils, methods
Rcpp, Matrix, BiocGenerics, Rsamtools, edgeR, limma,
GenomicFeatures, AnnotationDbi, methods, S4Vectors, IRanges,
GenomeInfoDb, stats, BiocParallel, utils
Biobase, BiocGenerics, graphics, grDevices, igraph, methods,
utils, sincell, TSCAN, destiny, HSMMSingleCell
AnnotationHub, ExperimentHub, HDF5Array, methods, S4Vectors,
stats, SummarizedExperiment, utils
AnnotationHub, RSQLite, XML, utils, ChemmineR, methods, stats,
rappdirs, BiocFileCache
S4Vectors, RColorBrewer, viridis, utils, SummarizedExperiment,
tools, graphics, raster, grDevices, stats, ggplot2, ggbeeswarm,
svgPanZoom, svglite, shiny, shinydashboard, matrixStats
pheatmap, Biostrings, UniProt.ws, BiocGenerics, utils,
biomaRt, motifStack
basilisk, BiocFileCache, BiocParallel, data.table, dplyr,
GenomeInfoDb, GenomicFeatures, GenomicRanges, IRanges,
magrittr, megadepth, methods, plyranges, readr, reticulate,
S4Vectors, stringr, SummarizedExperiment, tidyr
shiny, jsonlite, shinyjs, shinydashboard, shinyBS, gplots, DT,
ggplot2, RColorBrewer, annotate, AnnotationDbi, DESeq2, DOSE,
igraph, grDevices, graphics, stats, utils, GenomicRanges,
IRanges, S4Vectors, SummarizedExperiment, stringi, reshape2,
org.Hs.eg.db, org.Mm.eg.db, limma, edgeR, clusterProfiler,
methods, sva, RCurl, enrichplot, colourpicker, plotly,
heatmaply, Harman, pathview, apeglm, ashr
grDevices, stats, methods, Matrix, MASS, checkmate, expm,
igraph, Rcpp, RcppArmadillo, RcppParallel, plyr, precrec
cowplot, DOSE, ggplot2, ggraph, graphics, grid, igraph,
methods, plyr, purrr, RColorBrewer, reshape2, stats, utils,
scatterpie, shadowtext, GOSemSim, magrittr
grDevices, dplyr, ggplot2, GSEABase, GSVA,
SingleCellExperiment, limma, ggridges, msigdbr, stats,
BiocParallel, Matrix
corrplot (>= 0.84), grDevices, graphics, reshape2, ggplot2,
ggdendro, plotrix, stats, matrixStats, Rdpack, MASS, class,
prabclus, mclust, kableExtra
KEGGREST, MPINet, dplyr, gprofiler2, rWikiPathways,
reactome.db, stringr, GO.db, ontologyIndex, tidyr, shiny,
shinydashboard, shinyBS, plotly, magrittr, DT, clusterProfiler,
org.Hs.eg.db
Biobase, BiocGenerics (>= 0.29.2), grDevices, graphics,
methods, stats, utils, stats4, Rcpp, matrixStats, cytolib (>=
1.9.15), S4Vectors
flowDensity (>= 1.13.1), Cairo, e1071, grDevices, graphics,
stats,methods
utils, dplyr (>= 1.0.0), tibble, magrittr, plyr, rlang
Biobase, BiocGenerics, cytolib (>= 2.1.20), lattice,
latticeExtra, XML, ggplot2, graph, graphics, grDevices,
methods, stats, stats4, utils, RBGL, tools, Rgraphviz,
data.table, dplyr, Rcpp, scales, matrixStats, RcppParallel,
RProtoBufLib, digest, aws.s3, aws.signature, flowCore(>=
2.1.1), ncdfFlow(>= 2.25.4)
S4Vectors (>= 0.27.3), GenomeInfoDb (>= 1.1.3), IRanges (>=
2.5.12), methods, graphics
ggplot2, utils, rlang, ggnewscale, stats
ape, aplot (>= 0.0.4), dplyr, ggplot2 (>= 3.0.0), grid,
magrittr, methods, purrr, rlang, rvcheck, tidyr, tidytree (>=
0.2.6), treeio (>= 1.8.0), utils, scales
Rcpp, DelayedMatrixStats, matrixStats, DelayedArray,
HDF5Array, SummarizedExperiment, methods, stats, utils, splines
AnnotationDbi, checkmate, graph (>= 1.67.1), httr, rappdirs,
stats, utils
circlize (>= 0.4.8), GetoptLong, grDevices, utils
S4Vectors (>= 0.9.25), IRanges, GenomeInfoDb, GenomicRanges
(>= 1.29.6), GenomicFeatures, readr, Biostrings, AnnotationDbi,
BiocFileCache, snpStats, VariantAnnotation
Rcpp, graphics, GenomicRanges, SummarizedExperiment, IRanges
ggplot2, ggforce, R6, magrittr, dplyr, purrr, stats, stringr,
scales, rlang, httr, openxlsx, htmltools, reshape2, reactable,
msigdbr, kableExtra, rmarkdown, igraph, visNetwork, shiny
methods, BiocGenerics, S4Vectors, utils, stats, shiny,
shinydashboard, shinyAce, shinyjs, DT, rintrojs, ggplot2,
ggrepel, colourpicker, igraph, vipor, mgcv, graphics,
grDevices, viridisLite, shinyWidgets, ComplexHeatmap, circlize,
grid
methods, S4Vectors, shiny, SummarizedExperiment,
SingleCellExperiment, ggplot2, DT, stats, colourpicker
methods, stats, graphics, grid, lattice, grDevices
stats, grDevices, utils, graphics, pbapply, matlab, png,
raster, grid, uwot, gtools, Biobase, generics, parallel,
methods, xgboost
methods, stats, Rcpp (>= 0.11.2), Matrix, XVector (>= 0.7.3),
S4Vectors (>= 0.27.3), e1071, LiblineaR, graphics, grDevices,
utils, apcluster
Matrix, snpStats, VariantAnnotation, GenomeInfoDb, httr,
ensembldb, EnsDb.Hsapiens.v75, Rsamtools, GenomicFiles (>=
1.13.6), BiocGenerics (>= 0.25.1)
methods, stats, utils, data.table, S4Vectors, rlang, dplyr,
tidyr, forcats, ggplot2, limma, fgsea, ropls, imputeLCMD,
magrittr
Rcpp, SummarizedExperiment, utils, methods, ggplot2, dplyr,
magrittr, rlang, S4Vectors
methods, DelayedArray, Rcpp, S4Vectors, SingleCellExperiment,
SummarizedExperiment, bluster, ClusterR, benchmarkme, Matrix,
BiocParallel
xfun, utils, fs, GenomicRanges, readr, cmdfun
AnnotationDbi, DOSE, enrichplot, GOSemSim, MeSH.db, methods,
rvcheck, utils
Matrix, tools, robustbase, BiocGenerics, graphics, stats,
utils
methods, mgcv, caret, S4Vectors, stats, utils, rlang,
graphics, matrixStats
data.table, httr, jsonlite, methods, MultiAssayExperiment,
struct, SummarizedExperiment, utils
rtracklayer, tools, GenomicAlignments, GenomeInfoDb, IRanges,
ggplot2, Rsamtools, purrr, data.table, methods, dplyr,
magrittr, reshape2
ABSSeq, baySeq, Biobase, BiocGenerics, BiocParallel, biomaRt,
Biostrings, corrplot, DSS, DT, EDASeq, edgeR, genefilter,
GenomeInfoDb, GenomicAlignments, GenomicFeatures,
GenomicRanges, gplots, graphics, grDevices, harmonicmeanp,
heatmaply, htmltools, httr, IRanges, jsonlite, lattice, log4r,
magrittr, MASS, Matrix, methods, NBPSeq, pander, parallel,
qvalue, rmarkdown, rmdformats, Rsamtools, RSQLite, rtracklayer,
S4Vectors, stats, stringr, SummarizedExperiment, survcomp,
utils, VennDiagram, vsn, yaml, zoo
rtracklayer, DelayedArray, HDF5Array, BSgenome,
DelayedMatrixStats, parallel, methods, ggplot2, matrixStats,
graphics, stats, utils, GenomicRanges, IRanges
grDevices, stats, utils, lumi, methylumi, Gviz, genoset,
SummarizedExperiment, IRanges, GenomicRanges,
VariantAnnotation, rtracklayer,
bigmemoryExtras,GenomicFeatures, annotate, Biobase (>= 2.5.5),
AnnotationDbi, genefilter, biomaRt, methods, parallel
shinyjs, shinydashboard, shinycssloaders, shinyWidgets,
rmarkdown (>= 1.9.0), DESeq2, RColorBrewer, dplyr, tidyr,
rlang, knitr, readr, DT (>= 0.12.0), biomformat, tools,
stringr, vegan, matrixStats, heatmaply, car, broom, limma,
reshape2, tibble, forcats, lubridate, methods, plotly (>=
4.9.1)
S4Vectors, GenomeInfoDb, Biobase (>= 2.33.2), IRanges,
beanplot, RColorBrewer, lattice, nor1mix, siggenes, limma,
preprocessCore, illuminaio (>= 0.23.2), DelayedMatrixStats (>=
1.3.4), mclust, genefilter, nlme, reshape, MASS, quadprog,
data.table, GEOquery, stats, grDevices, graphics, utils,
DelayedArray (>= 0.15.16), HDF5Array, BiocParallel
AnnotationDbi, BiasedUrn, Biobase, BiocGenerics,
GenomicRanges, GO.db, IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylationEPICmanifest, IRanges, limma, methods,
methylumi, minfi, org.Hs.eg.db, ruv, S4Vectors, statmod,
stringr, SummarizedExperiment
igraph, ellipse, corpcor, RColorBrewer, parallel, dplyr,
tidyr, reshape2, methods, matrixStats, rARPACK, gridExtra,
grDevices, graphics, stats, ggrepel, BiocParallel, utils
ade4, Biostrings, ggplot2, grDevices, graphics, htmlwidgets,
stats, stats4, utils, XML
softImpute, methods, stats, graphics, pdist, reticulate,
scran, data.table, FNN, matrixStats, rdetools, limma, mvtnorm
magrittr, graphite, AnnotationDbi, dplyr, fgsea, metap,
rappdirs, rlang, methods
assertive, BiocGenerics, Biostrings, BSgenome, CRISPRseek,
data.table, GenomeInfoDb, GenomicFeatures, GenomicRanges,
ggplot2, grid, karyoploteR, magrittr, methods, parallel,
plyranges, Rbowtie, reticulate, rtracklayer, stats, stringi,
tidyr, tidyselect, utils
SummarizedExperiment, VariantAnnotation, cowplot, Biostrings,
base, methods, magrittr, tibble, tidyr, gtools, gridExtra,
maftools, MCMCprecision, data.table, dplyr, rlang, BSgenome,
GenomeInfoDb, GenomicFeatures, GenomicRanges, IRanges,
S4Vectors, uwot, ggplot2, stringr,
TxDb.Hsapiens.UCSC.hg19.knownGene,
TxDb.Hsapiens.UCSC.hg38.knownGene, BSgenome.Hsapiens.UCSC.hg19,
BSgenome.Hsapiens.UCSC.hg38, BSgenome.Mmusculus.UCSC.mm9,
BSgenome.Mmusculus.UCSC.mm10, deconstructSigs, decompTumor2Sig,
topicmodels, ggrepel, withr, plotly, utils
httr, xml2, utils, methods, grDevices, ggplot2, IRanges,
GenomicRanges, S4Vectors
R.utils, matrixStats, plyranges, transport, Rsamtools,
S4Vectors, grDevices, graphics, rtracklayer, dplyr,
GenomeInfoDb, methods, GenomicRanges, utils, stats, magrittr,
TxDb.Hsapiens.UCSC.hg19.knownGene,
TxDb.Hsapiens.UCSC.hg38.knownGene, ggplot2, gplots,
BiocGenerics, rlang
Rcpp, stats, reticulate, nloptr, methods
Biostrings, checkmate, dplyr (>= 1.0.0), DT, FactoMineR,
forcats, ggdendro, grDevices, grid, lifecycle, lubridate,
methods, pander, parallel, plotly, readr, reshape2, rmarkdown,
Rsamtools, scales, ShortRead, stats, stringr, tidyr, tidyselect
(>= 0.2.3), utils, viridisLite, zoo
Biobase, S4Vectors, methods, AnnotationDbi, stats, utils,
BiocFileCache, shiny, graph, Rgraphviz, ontologyPlot, dplyr,
magrittr, DT, igraph
shiny (>= 0.9.1), scales, dplyr, DT (>= 0.1.40), graphics,
utils, ggplot2, shinydashboardPlus, colourpicker, shinyhelper,
shinyWidgets, shinyjs, colorspace, shinydashboard, stats,
grDevices, grid, BiocGenerics
FactoMineR, MultiAssayExperiment, methods, graphics, stats,
utils
GenomicRanges, igraph, motifmatchr, stats, utils, grDevices,
graphics
S4Vectors, rtracklayer, stats, GenomeInfoDb, magrittr, zoo,
ggplot2, methods, parallel, cowplot
ggplot2, protolite, Biobase, GEOquery, Rook, htmltools,
httpuv, jsonlite, limma, opencpu, assertthat, methods, httr,
rhdf5, utils, parallel, stringr, fgsea (>= 1.9.4), svglite,
gtable, stats, Matrix, pheatmap, scales, ccaPP, grid,
grDevices, AnnotationDbi, DESeq2, curl
plyr, stats, graphics, matrixStats, methods
BiocParallel, S4Vectors, ComplexHeatmap, SingleCellExperiment,
SummarizedExperiment, Seurat, matrixStats, Matrix, cluster,
aricode, methods, utils, dplyr, grid, scales, scran,
viridisLite, clue, randomcoloR, ggplot2, cowplot,
intrinsicDimension, scater, knitr, reshape2, stats, Rtsne,
uwot, circlize, RColorBrewer
cubature, doParallel, evmix, foreach, magrittr, methods,
parallel, purrr, stats, truncdist, vegan, VGAM
S4Vectors, IRanges, GenomicRanges, randomForest, ModelMetrics,
e1071, PRROC, pROC, caret, DMwR, utils, cluster, dbscan,
doSNOW, foreach, pbapply, stats, parallel
dplyr, GenomicRanges, GenomicFeatures, GenomicAlignments,
GenomeInfoDb, IRanges, S4Vectors, methods, rlang,
SummarizedExperiment, AnnotationDbi, DESeq2, data.table,
tibble, Gviz, BiocParallel
GenomicRanges, stats, soGGi, methods, utils, S4Vectors,
R.utils, dplyr, magrittr, tidyr, IRanges, rjson,
ChIPseeker,GenomicFeatures,TxDb.Hsapiens.UCSC.hg19.knownGene,TxDb.Hsapiens.UCSC.hg38.knownGene,TxDb.Mmusculus.UCSC.mm10.knownGene,
TxDb.Mmusculus.UCSC.mm9.knownGene,org.Hs.eg.db,org.Mm.eg.db,rGREAT,
pheatmap, ggplot2, EnrichedHeatmap, ComplexHeatmap, grid,
circlize, BiocParallel, rtracklayer, GenomeInfoDb, grDevices,
rlang, Cairo, tiff
stringr, RCurl, igraph, ggplot2, reshape2, grid, parallel,
biomaRt, BgeeDB, topGO, Biobase, labeling, GO.db
assertthat, BiocGenerics, Biostrings, dplyr (>= 1.0.0),
ggdendro, ggplot2, graphics, grDevices, IRanges, limma,
magrittr, preprocessCore, purrr, RColorBrewer, readr, rlang,
scales, stats, stringr, tibble, tidyr, tidyselect, utils
httr, utils, XML, rjson, data.table, tidyr, RCurl
utils, methods, knitr, callr, rmarkdown, CodeDepends,
BiocStyle
phyloseq, KernSmooth, reshape2, ggplot2, stats, methods,
graphics, grDevices, matrixStats
BiocFileCache, methods, rtracklayer, S4Vectors, utils, RCurl,
data.table, R.utils, Matrix, GenomicRanges, sessioninfo, tools
minfi, HDF5Array, rhdf5, S4Vectors, utils, methods, RCurl,
R.utils, BiocFileCache
BiocGenerics, biomaRt, circlize, GenomeInfoDb,
GenomicFeatures, graphics, grDevices, httr, methods, parallel,
RSQLite, Rsamtools, rtracklayer, S4Vectors, stats, stringr,
utils
BiocStyle (>= 2.5.19), derfinder (>= 1.2.5), DEFormats,
DESeq2, GenomeInfoDb, GenomicRanges, knitr (>= 1.6),
knitrBootstrap (>= 0.9.0), methods, RefManageR, rmarkdown (>=
0.9.5), S4Vectors, SummarizedExperiment, utils
httr, stringi, rsvg, magick, data.table, Biostrings, utils,
rvest, xml2, IRanges, S4Vectors
GenomicRanges, IRanges, BiocGenerics, GenomeInfoDb,
bumphunter, S4Vectors, stats, survival, logistf, plyr, corrplot
BiocFileCache, rappdirs, xml2, RCurl, utils
SingleCellExperiment, SummarizedExperiment, Matrix, methods,
utils, stats, edgeR, rhdf5, parallel, DropletUtils, doParallel,
iterators, foreach, Seurat
ggplot2, ggrepel, flowCore, umap, Seurat, reshape2, scales,
RColorBrewer, corrplot, stats, grDevices, graphics, utils,
MASS, matrixStats, methods
igraph, Matrix, BiocGenerics, BiocParallel, BiocNeighbors,
BiocSingular, S4Vectors, SummarizedExperiment,
SingleCellExperiment, scran, scater, scuttle, bluster, methods,
DelayedArray, xgboost, stats, utils
BiocParallel, BiocSingular, cluster, DelayedArray,
DelayedMatrixStats, distr, igraph, M3Drop (>= 1.9.4), parallel,
pdist, proxy, ruv, S4Vectors (>= 0.23.19), SingleCellExperiment
(>= 1.7.3), SummarizedExperiment
stats, methods, assertthat, tibble, dplyr, purrr, stringr,
Rdpack, matrixStats, BiocParallel, elasticnet, sparsepca,
cluster, kernlab, origami, RSpectra, coop, Matrix, DelayedArray
utils, methods, BiocGenerics, S4Vectors, GenomicRanges,
SummarizedExperiment, ExperimentHub, AnnotationHub,
AnnotationDbi, ensembldb, GenomicFeatures
Biostrings, RColorBrewer, colorRamps, ggdendro, ggfittext,
stringr, vegan, powerTCR, SummarizedExperiment,
SingleCellExperiment, Seurat
stats, utils, methods, grid, gridExtra, Matrix, BiocGenerics,
S4Vectors, SummarizedExperiment, DelayedArray,
DelayedMatrixStats, BiocNeighbors, BiocSingular, BiocParallel,
scuttle, rlang, ggbeeswarm, viridis
methods, stats, utils, SingleCellExperiment,
SummarizedExperiment, MultiAssayExperiment, S4Vectors, dplyr,
magrittr, rlang
SummarizedExperiment, S4Vectors, BiocGenerics, BiocParallel,
Rcpp, stats, methods, utils, Matrix, scuttle, edgeR, limma,
BiocNeighbors, igraph, statmod, DelayedArray,
DelayedMatrixStats, BiocSingular, bluster, dqrng, beachmat
DelayedArray, glmpca (>= 0.2.0), HDF5Array, Matrix,
SingleCellExperiment, SummarizedExperiment, BiocSingular
methods, utils, stats, Matrix, Rcpp, BiocGenerics, S4Vectors,
BiocParallel, GenomicRanges, SummarizedExperiment,
DelayedArray, DelayedMatrixStats, beachmat
data.table, eulerr, GenomeInfoDb, GenomicAlignments,
GenomicRanges, grDevices, grid, IRanges, limma, methods,
pbapply, pbmcapply, png, RColorBrewer, Rsamtools, rtracklayer,
S4Vectors, stats
BiocParallel, grDevices, utils, stringr, tibble, illuminaio,
MASS, GenomicRanges, IRanges, grid, preprocessCore, S4Vectors,
randomForest, wheatmap, ggplot2, parallel, matrixStats,
DNAcopy, stats, SummarizedExperiment
AnnotationDbi, ggplot2, data.table, ExperimentHub, HDF5Array,
magrittr, RSQLite, dplyr, fgsea, scales, methods, qvalue,
stats, utils, reshape2, visNetwork, BiocParallel, fastmatch,
reactome.db, Matrix, clusterProfiler, readr, DOSE, rhdf5,
GSEABase, DelayedArray
GOSemSim, ComplexHeatmap (>= 2.5.4), circlize, GetoptLong,
digest, tm, GO.db, org.Hs.eg.db, AnnotationDbi, slam, methods,
clue, grDevices, graphics, stats, utils, proxyC, Matrix,
cluster (>= 1.14.2)
ape, batchelor, BiocGenerics, BiocParallel, colourpicker,
colorspace, cowplot, cluster, ComplexHeatmap, data.table,
DelayedMatrixStats, DESeq2, dplyr, DT, ExperimentHub, fields,
ggplot2, ggplotify, ggrepel, ggtree, gridExtra, GSVA (>=
1.26.0), GSVAdata, igraph, KernSmooth, limma, MAST, Matrix,
matrixStats, methods, msigdbr, multtest, plotly, RColorBrewer,
ROCR, Rtsne, S4Vectors, scater, scMerge (>= 1.2.0), scran,
Seurat (>= 3.1.3), shiny, shinyFiles, shinyWidgets, shinyjs,
shinyBS, shinyjqui, sva, reshape2, AnnotationDbi, shinyalert,
circlize, enrichR, celda, shinycssloaders, shinythemes, uwot,
DropletUtils, scds (>= 1.2.0), reticulate (>= 1.14), tools,
withr, GSEABase, R.utils, zinbwave, scRNAseq (>= 2.0.2),
TENxPBMCData, yaml, rmarkdown, magrittr, kableExtra,
scDblFinder
RColorBrewer, Rcpp, ape, aplot, ggplot2, ggrepel, ggtree,
graphics, grDevices, gridExtra, methods, parallel, seqinr,
stats, tidytree, utils
av, DESeq2, edgeR, WGCNA, flashClust, htmlwidgets, genefilter,
ggplot2, ggdendro, grImport, grid, gridExtra, gplots, igraph,
rsvg, shiny, dynamicTreeCut, grDevices, graphics, ggplotify,
plotly, rols, stats, SummarizedExperiment, shinydashboard,
utils, visNetwork, methods, xml2, yaml
shiny, golem, ggplot2, cowplot, plotly, viridisLite,
shinyWidgets, Polychrome, sessioninfo, grid, grDevices,
methods, AnnotationHub, utils, png, scater, DT, ExperimentHub,
RColorBrewer, SummarizedExperiment, stats, graphics, S4Vectors,
IRanges, fields, benchmarkme, SpatialExperiment, BiocFileCache,
jsonlite, tibble, readbitmap
ggplot2, concaveman, BiocParallel, spatstat.core,
spatstat.geom, lmerTest, BiocGenerics, S4Vectors, lme4,
methods, mgcv, pheatmap, rlang, grDevices, IRanges, stats,
data.table, dplyr, tidyr
BiocGenerics, BiocParallel, checkmate (>= 2.0.0), edgeR,
fitdistrplus, ggplot2, locfit, matrixStats, methods, scales,
scater (>= 1.15.16), stats, SummarizedExperiment, utils,
crayon, S4Vectors, grDevices
ggplot2, ggthemes, grid, gridExtra, methods, scales, sp,
stats, utils
ape, MASS, grDevices, graphics, stats, readr, tibble, tidyr,
dplyr, stringr, purrr, magrittr, igraph, methods
GenomicRanges, GenomicFeatures (>= 1.31.3),
SummarizedExperiment, VariantAnnotation (>= 1.25.11), rjson,
ggplot2, limma, edgeR, DESeq2, GOstats, GO.db, annotate,
pheatmap, batchtools, yaml, stringr, assertthat, magrittr, DOT,
rsvg, IRanges
DT, assertthat, bsplus, crayon, dplyr, ggplot2, glue,
magrittr, methods, plotly, rlang, rstudioapi, shinyAce,
shinyFiles, shinyWidgets, shinydashboard, shinydashboardPlus
(>= 2.0.0), shinyjqui, shinyjs, shinytoastr, stringr, stats,
styler, tibble, utils, vroom (>= 1.3.1), yaml
dplyr, tibble, tidyr, ggplot2, plotly, magrittr, rlang, purrr,
lifecycle, methods, utils, S4Vectors, tidyselect, ellipsis,
pillar, stringr, cli, fansi
tibble (>= 3.0.4), dplyr, magrittr, tidyr, ggplot2, rlang,
purrr, lifecycle, methods, plotly, utils, S4Vectors,
tidyselect, ellipsis, pillar, stringr, cli, fansi
tibble, readr, dplyr, magrittr, tidyr, stringr, rlang, purrr,
preprocessCore, stats, parallel, utils, lifecycle, scales,
SummarizedExperiment, methods
Rcpp (>= 0.11.2), ALS, alsace, signal, KernSmooth, graphics,
grDevices, stats
methods, stats, grDevices, reshape2, Rtsne, umap,
RColorBrewer, ggplot2, ggrepel, SummarizedExperiment
mgcv, edgeR, SingleCellExperiment, SummarizedExperiment,
slingshot, magrittr, RColorBrewer, BiocParallel, Biobase,
pbapply, ggplot2, princurve, methods, monocle, igraph,
S4Vectors, tibble, Matrix, viridis, matrixStats
BiocGenerics (>= 0.26.0), Biostrings (>= 2.48.0), dplyr (>=
0.7.6), GenomicRanges (>= 1.32.6), ggplot2 (>= 3.0.0),
ggseqlogo (>= 0.1), grDevices, gridExtra (>= 2.3), methods,
parallel, Rcpp (>= 1.0.4.8), scales (>= 1.0.0), stats,
TFMPvalue (>= 0.0.8), utils
ape, dplyr, jsonlite, magrittr, methods, rlang, tibble,
tidytree (>= 0.3.0), utils
markdown, shiny, shinyjs, shinyBS,
shinyWidgets,shinycssloaders, DT, Gviz, Homo.sapiens, openxlsx,
condformat, stringr, org.Hs.eg.db,
TxDb.Hsapiens.UCSC.hg38.knownGene, BiocFileCache,rappdirs,
TxDb.Hsapiens.UCSC.hg19.knownGene, rlist, utils,
EnsDb.Hsapiens.v75, EnsDb.Hsapiens.v86, OrganismDbi,
BSgenome.Hsapiens.UCSC.hg19, processx, Rsamtools, GenomicRanges
methods, stats, utils, MASS, ggplot2, ggseqlogo, yaml,
IRanges, Rcpp, Rdpack (>= 0.7), Biostrings, BiocGenerics,
S4Vectors, rlang, grid
MASS, pbkrtest (>= 0.4-4), lmerTest, iterators, splines,
foreach, doParallel, colorRamps, gplots, progress, reshape2,
lme4 (>= 1.1-10), grDevices, graphics, utils, stats
methods, stats, Matrix, BiocGenerics, reticulate, S4Vectors,
DelayedArray, basilisk, zellkonverter, scuttle,
SingleCellExperiment, BiocParallel, BiocSingular
methods, BiocGenerics, S4Vectors (>= 0.17.25), IRanges (>=
2.13.12), Biostrings (>= 2.47.6), foreach, GenomicFeatures (>=
1.31.3), ggplot2, Hmisc, mclust, rtracklayer (>= 1.39.7),
seqinr, stringr
methods, utils, stats, grDevices, assertthat, S4Vectors,
DelayedArray, DelayedMatrixStats, BiocParallel, BiocGenerics,
limma, topconfects, dplyr, purrr, ggplot2, rlang, scales,
reshape2, splines, Ckmeans.1d.dp, glm2, RhpcBLASctl
utils, methods, cli, Biobase, SummarizedExperiment, config,
golem, shiny, DT, ggplot2, dplyr, rlang, stringr,
shinydashboard, shinyWidgets, shinycustomloader, RColorBrewer,
logging
mzR (>= 2.19.5), BiocGenerics, ProtGenerics (>= 1.17.2),
lattice, RColorBrewer, plyr, RANN, MassSpecWavelet (>= 1.5.2),
S4Vectors, robustbase, IRanges, SummarizedExperiment,
MsCoreUtils
Matrix, basilisk, reticulate, SingleCellExperiment (>=
1.11.6), SummarizedExperiment, DelayedArray, methods,
S4Vectors, utils
checkmate, BiocParallel, data.table, DrImpute, kernlab, MASS,
Matrix, methods, rsvd, S4Vectors, SAVER, SingleCellExperiment,
stats, SummarizedExperiment, utils
GenomicRanges, GenomicFeatures, GenomicAlignments, DESeq2,
ggrepel, SummarizedExperiment, Rsubread, stats, ggplot2,
methods, rtracklayer, ensembldb, VariantAnnotation, dplyr,
tidyr, repmis, Rsamtools
GenomicRanges, GenomicFeatures, BiocGenerics, IRanges,
GenomicAlignments, Gviz, S4Vectors, Rsamtools, BiocStyle,
igraph, htmltools, data.table, UpSetR, tidyr, DT, MASS, grid,
graphics, pbmcapply
AnVIL, httr, jsonlite, rmarkdown, whisker, tools, utils,
stats,
stats, utils, methods, futile.logger, jsonlite, httr,
rapiclient (>= 0.1.3), tibble, tidyselect, tidyr, rlang,
BiocManager
DBI, RSQLite, S4Vectors (>= 0.9.25), stats, KEGGREST
GenomicFeatures, Rsamtools, rtracklayer, BiocGenerics,
jsonlite, BiocManager, biocViews, BiocCheck, graph,
AnnotationDbi, Biobase, Biostrings, DBI, GenomeInfoDb (>=
1.15.4), OrganismDbi, RSQLite, AnnotationForge, futile.logger
(>= 1.3.0), XML, RCurl
Biobase, BiocGenerics, Biostrings, GenomicRanges, Hmisc,
IRanges (>= 2.13.11), R2HTML, RColorBrewer, Rsamtools,
ShortRead, XML, biomaRt, edgeR, grDevices, graphics, methods,
rJava, stats, svMisc, utils, sendmailR, bitops
Biobase, BiocGenerics, coda, cowplot, ggExtra, ggplot2,
graphics, grDevices, MASS, methods, Rcpp (>= 0.11.3),
S4Vectors, scran, scuttle, stats, stats4, SummarizedExperiment,
viridis, utils, Matrix, matrixStats, assertthat, reshape2,
BiocParallel, hexbin
Rcpp (>= 1.0.4.6), stats, purrr, scater, scran,
SummarizedExperiment, coda, rhdf5, S4Vectors, Matrix,
assertthat, mclust, RCurl, DirichletReg, xgboost, utils,
ggplot2, scales, BiocFileCache, BiocSingular
GenomicFeatures, tximport, Biostrings, rtracklayer, biomaRt,
jsonlite, methods, dplyr, data.table, sjmisc, grDevices,
graphics, stats, utils, rslurm, rhdf5
R.utils, data.table, curl, RCurl, digest, methods, stats,
utils, dplyr, RSQLite, graph, Biobase,
ExperimentHub (>= 1.16.1), markdown, rmarkdown, EBImage,
magick, magrittr, filesstrings, animation, einsum
WGCNA, dynamicTreeCut, matrixStats, DESeq2, sva, RColorBrewer,
ComplexHeatmap, ggplot2, reshape2, igraph, ggnetwork,
intergraph, networkD3, ggnewscale, ggpubr, NetRep, stats,
grDevices, graphics, utils, methods, BiocParallel, minet,
GENIE3, SummarizedExperiment
methods, stats, utils, dplyr, RSQLite, DBI, rappdirs,
filelock, curl, httr
BiocFileCache, BiocManager, biocViews, tibble, magrittr,
methods, rlang, tidyselect, stringr, rvest, dplyr, xml2, readr,
httr, htmltools, DT, tools, utils, igraph, tidyr, jsonlite, gh,
RBGL, graph
BiocGenerics, S4Vectors, Matrix, methods, utils, DelayedArray,
BiocParallel, ScaledMatrix, irlba, rsvd, Rcpp, beachmat
methods, utils, grDevices, graphics, stats, crayon,
SummarizedExperiment, ExperimentHub, methods, grid, graphics,
stats, grDevices, circlize, testthat, ComplexHeatmap(>=
1.99.8), ggplot2, matrixStats, gtools, reshape2,
preprocessCore, randomcoloR, V8, limma
utils, methods, Matrix, S4Vectors, IRanges
readr, stringr, lpSolve, igraph, dplyr, rjson, rmarkdown,
methods
dplyr, ggplot2, glue, tidyr, igraph, networkD3, visNetwork,
ggcorrplot, purrr, ggraph, stats, utils, relations, maftools,
assertthat, Matrix
dplyr, stats, utils, grDevices, plotly, karyoploteR,
CopyNumberPlots, GenomicRanges, magrittr, DT, scales, graphics
RCurl, stringr, S4Vectors, stringdist, ggplot2, igraph, utils,
grid, gridExtra, methods, stats, BiocFileCache
iCluster, cluster, impute, limma, ConsensusClusterPlus,
grDevices, survival
circlize, ComplexHeatmap, clusterProfiler, DESeq2, dplyr,
GenomicTools, GenomicTools.fileHandler, GGally, ggnetwork,
ggplot2, ggpubr, ggrepel, graphics, grid, igraph, Matrix,
methods, network, Rcpp, RCy3, stats, SummarizedExperiment,
S4Vectors, utils, WebGestaltR
BiocGenerics, BiocFileCache, BiocParallel, dplyr, rlang, glue,
memoise, purrr (>= 0.3.0), rappdirs, tidyr, tidyselect,
lubridate
Rcpp, RcppArmadillo, stats, utils, Matrix, tictoc, scater,
stringr, irlba, data.table, glue, pbapply, umap, Rtsne,
reticulate, fastmatch, matrixStats, ggplot2, BiocParallel,
SummarizedExperiment, fgsea
ChIC.data (>= 1.11.1), caTools, methods, GenomicRanges,
IRanges, parallel, progress, randomForest, caret, grDevices,
stats, utils, graphics, S4Vectors, BiocGenerics,
genomeIntervals, Rsamtools
AnnotationDbi, BiocGenerics (>= 0.1.0), Biostrings (>=
2.47.6), DBI, dplyr, ensembldb, GenomeInfoDb,
GenomicAlignments, GenomicFeatures, RBGL, Rsamtools,
SummarizedExperiment, VennDiagram, biomaRt, ggplot2, grDevices,
graph, graphics, grid, InteractionSet, KEGGREST, matrixStats,
multtest, regioneR, rtracklayer, stats, utils
shiny, colourpicker, shinyjs, rtracklayer, shinyFiles,
shinyhelper, shinyWidgets, shinydashboardPlus, shinycssloaders,
Matrix, plotly, shinydashboard, colorRamps, kableExtra,
viridis, batchelor, BiocParallel, parallel, Rsamtools, ggplot2,
qualV, stringdist, fs, qs, DT, scran, scater,
ConsensusClusterPlus, Rtsne, dplyr, tidyr, GenomicRanges,
IRanges, irlba, rlist, umap, tibble, methods, jsonlite, edgeR,
stats, graphics, grDevices, utils, S4Vectors,
SingleCellExperiment, SummarizedExperiment, msigdbr, Sushi,
forcats, Rcpp, coop, matrixTests, DelayedArray
data.table, dplyr, forcats, ggplot2, magrittr, purrr, tidyr,
rlang, stringr, shiny, DT, RColorBrewer, VennDiagram, rio,
scales, shinydashboard, shinyjs, stats, tibble, grid
circlize (>= 0.4.5), GetoptLong, colorspace, clue,
RColorBrewer, GlobalOptions (>= 0.1.0), png, Cairo, digest,
IRanges, matrixStats, foreach, doParallel
Biobase, S4Vectors, MultiAssayExperiment, MatrixGenerics,
piano, BiocParallel, methods, stats, utils, graphics,
grDevices, lsa, data.table, crayon, glue, rlang
stats, methods, BiocParallel, RColorBrewer, cowplot,
doParallel, dplyr, factoextra, flexmix, ggplot2, magrittr,
mbest, pheatmap, speedglm, stringr, strucchange, tibble,
ggrepel, MASS, logging, Matrix, tidyr, caret, rlang, grDevices
cytolib(>= 2.3.9), flowCore (>= 1.99.10), flowWorkspace (>=
4.1.8), openCyto (>= 1.99.2), XML, data.table, jsonlite, RBGL,
Rgraphviz, Biobase, methods, graph, graphics, utils, base64enc,
plyr, dplyr, grDevices, ggcyto (>= 1.11.4), yaml,
lattice, stats, corpcor, RUnit, tibble, RcppParallel, xml2
Biobase, MSnbase, tibble, RColorBrewer,stats,preprocessCore,
Cairo,png, lattice,reshape2,gplots,pcaMethods,ggplot2,
limma,knitr,tmvtnorm,norm,impute, stringr, grDevices, graphics,
openxlsx, utils, cp4p (>= 0.3.5), scales, Matrix, vioplot,
imp4p (>= 1.1), forcats, methods, DAPARdata (>= 1.22.2),
siggenes, graph, lme4, readxl, highcharter, clusterProfiler,
dplyr, tidyr,AnnotationDbi, tidyverse, vsn, FactoMineR,
factoextra, multcomp, purrr, visNetwork, foreach, parallel,
doParallel, igraph, dendextend, Mfuzz, apcluster, diptest,
cluster
graph, igraph, RBGL, circlize, limma, edgeR, EBSeq, NBPSeq,
stats, grDevices, graphics, pheatmap, utils, ggplot2, Matrix,
jsonlite, tools, DESeq2, methods
Biobase, GEOquery, impute, limma, pheatmap, plyr, scales,
snpStats, sva, swamp, stats, methods, utils
zoo (>= 1.8-3), data.table, magrittr, dplyr, tidyr, rlang, mzR
(>= 2.18), signal, bit64, reticulate, ggplot2, RSQLite, DBI,
ape, phangorn, pracma, RMSNumpress, Rcpp
CatEncoders, matlab, rcdk, stringdist, tokenizers, webchem,
purrr, ttgsea, PRROC, reticulate, stats
methods, matrixStats (>= 0.60.0), sparseMatrixStats, Matrix,
S4Vectors (>= 0.17.5), IRanges (>= 2.25.10)
utils, stats, methods, Matrix, Rcpp, BiocGenerics, S4Vectors,
SummarizedExperiment, BiocParallel, DelayedArray,
DelayedMatrixStats, HDF5Array, rhdf5, edgeR, R.utils, dqrng,
beachmat, scuttle
BiocParallel, SummarizedExperiment, utils, ggplot2, dplyr,
tidyr, RColorBrewer, magrittr, gganimate, purrr, aricode
gplots, Biobase, GEOquery, limma, impute, RColorBrewer, zoo,
igraph, plyr, MASS, RCurl, methods
AnnotationHub, ewceData, ExperimentHub, ggplot2, grDevices,
grid, reshape2, biomaRt, limma, stringr, cowplot, HGNChelper,
ggdendro, gridExtra, Matrix, methods, parallel, future, scales,
SummarizedExperiment, stats, utils
foreach, doParallel, parallel, stats, survivalROC, glmnet,
rms, mboost, survivalsvm, ggplot2,
IlluminaHumanMethylation450kanno.ilmn12.hg19, minfi, boot,
survival, utils
GenomicFeatures, stringr, GenomeInfoDb, igraph, MASS, nnls,
limma, matrixStats, RBGL, prodlim, graph, methods, utils,
stats, doParallel, foreach, affxparser, GenomicRanges,
S4Vectors, IRanges, qvalue, cobs, rhdf5, BSgenome, Biostrings,
glmnet, abind, iterators, lpSolve, poibin, speedglm, tximport
methods, ExperimentHub, BiocManager, DBI, httr, curl
SingleCellExperiment, methods, stats, utils, irlba, TSCAN,
SC3, matrixStats
stats, utils, BiocGenerics, colorRamps, ConsensusClusterPlus,
CytoML, dplyr, flowCore, flowWorkspace, ggforce, ggnewscale,
ggplot2, ggpointdensity, ggpubr, ggrepel, grDevices, magrittr,
methods, pheatmap, RColorBrewer, rlang, Rtsne, tidyr, XML,
scattermore
xml2, rvest, stringr, RCurl, doParallel, foreach, plyr
methods, stats, utils, graphics, S4Vectors, IRanges, Biobase,
SummarizedExperiment, GSEABase, Matrix, parallel, BiocParallel,
SingleCellExperiment, sparseMatrixStats, DelayedArray,
DelayedMatrixStats, HDF5Array, BiocSingular
snpStats, mvtnorm, Rsamtools, igraph, kernlab, FactoMineR,
IRanges, GenomicRanges, data.table,grDevices, graphics,stats,
utils, methods
AnnotationDbi, backbone, bs4Dash (>= 2.0.0), circlize,
colorspace, colourpicker, ComplexHeatmap, dendextend, DESeq2,
dplyr, DT, dynamicTreeCut, expm, ggforce, ggplot2, ggrepel,
GO.db, graphics, grDevices, grid, igraph, matrixStats, methods,
plotly, RColorBrewer, rintrojs, rlang, rmarkdown, S4Vectors,
scales, shiny, shinycssloaders, shinyWidgets, stats,
SummarizedExperiment, tidyr, tools, utils, viridis, visNetwork
ExperimentHub (>= 1.14.0), AnnotationHub, AnnotationFilter,
data.table, utils, BSgenome, GenomeInfoDb, GenomicFeatures,
GenomicRanges, ensembldb
data.table, ggplot2, reshape2, methods, utils, Biostrings,
methods, utils, stats, tools, DBI, RSQLite (>= 2.0), RCurl,
XVector (>= 0.19.7), Biostrings (>= 2.47.6), BiocIO,
rtracklayer (>= 1.51.5), biomaRt (>= 2.17.1), Biobase (>=
2.15.1)
ComplexHeatmap, ggplot2, methods, S4Vectors, Biobase, ggpubr,
dplyr, plotly, BiocFileCache, grid, flextable
Biobase, S4Vectors, rjson, readxl, EnvStats, reshape2,
methods, utils, stats, BiocGenerics
utils, stats, tools, Matrix, rhdf5filters, BiocGenerics (>=
0.31.5), S4Vectors, IRanges
Rcpp (>= 1.0.0), RcppEigen(>= 0.3.2.0), Matrix, RANN, ape,
dendextend, ggplot2, mclust, patchwork, dplyr, grDevices,
methods, stats
available, usethis, biocthis, dplyr, aws.s3, fs, BiocManager,
utils
Rcpp (>= 1.0.0), MCL, anocva, Polychrome, RColorBrewer,
colorspace, AnnotationDbi, ggplot2, org.Hs.eg.db, org.Mm.eg.db,
pheatmap, AdaptGauss, DEsingle,DrImpute, Matrix, Seurat,
SingleCellExperiment, clusterProfiler, ggpubr, ggraph, igraph,
mixtools, scater, scran, stats, methods, grDevices, graphics,
utils, knitr
utils, reactable, htmltools, dplyr, readr, tidyr, purrr,
rlang, tibble, BiocParallel, stringr, fs, zip, lubridate,
lifecycle, ggplot2, ggrepel, stats, upsetjs, psych, grDevices,
data.table, readxl, tools, Rcapture, plotly
AnnotationDbi, BSgenome, cleanUpdTSeq, preprocessCore,
IRanges, GenomeInfoDb, depmixS4, limma, BiocParallel,
Biostrings, dplyr, magrittr, plyranges, readr, RSQLite, DBI,
purrr, GenomicFeatures, ggplot2, reshape2
config, golem, shiny, DT, shinydashboard, shinyFiles,
shinycssloaders, data.table, fs, dplyr, tidyr, circlize,
colourpicker, dendextend, factoextra, ggplot2, plotly, plyr,
shinyFeedback, shinyalert, tibble, umap, visNetwork,
wordcloud2, readxl, htmlwidgets, colorspace, signal, scales,
htmltools, ComplexHeatmap, grDevices, stats, tools, utils,
biomaRt, rlang, fmsb
ComplexHeatmap (>= 2.7.10), grDevices, stats, shiny, grid,
GetoptLong, S4Vectors (>= 0.26.1), digest, IRanges, kableExtra
(>= 1.3.1), utils, svglite, htmltools, clisymbols, jsonlite,
RColorBrewer
methods, BSgenome, plyr, reshape2, gridExtra, Biostrings (>=
2.50.0), IRanges, GenomicRanges, DRIMSeq, RColorBrewer,
rtracklayer, VennDiagram, DBI, grDevices, graphics, stats,
utils, GenomeInfoDb, grid, tximport (>= 1.7.1), tximeta (>=
1.7.12), edgeR, futile.logger, stringr, dplyr, magrittr, readr,
tibble, XVector, BiocGenerics, RCurl, Biobase
methods, XML (>= 2.3-0), graph, utils, RCurl, Rgraphviz
data.tree, graphics, grDevices, igraph, parallel,
RColorBrewer, Rfast, stats, SummarizedExperiment, utils
BiocParallel, dplyr, ggplot2, ggrepel, magrittr, stats, utils
utils, reticulate, S4Vectors, methods, basilisk,
ExperimentHub, AnnotationHub
doParallel, igraph, bigstatsr, rjson, plyr, data.table,
UpSetR, reshape2, jsonlite, methods, ff, argparse, impute,
RnBeads.hg19, utils, stats
gdata, pls, sfsmisc, MASS, rpart, genefilter, fpc, ggvis,
shiny, gbm, RColorBrewer, hwriter, threejs (>= 0.2.2), mlbench,
stats4, tools, grDevices, graphics, stats, magrittr
AnnotationDbi, gplots, graphics, stats, utils
rhdf5, dplyr, tidyr, reshape2, pheatmap, ggplot2, methods,
RColorBrewer, cowplot, ggrepel, reticulate, HDF5Array,
grDevices, stats, magrittr, forcats, utils, corrplot,
DelayedArray, Rtsne, uwot, basilisk, stringi
ggplot2, readr, magrittr, dplyr, purrr, reshape2, gridExtra,
utils, stringr, chron, ggpubr, stats, cowplot, RColorBrewer,
ggridges, tidyr, scales, grid, rlang, ggforce, grDevices,
gtable, plyr, knitr, rmarkdown
SummarizedExperiment, S4Vectors, pcaMethods (>= 1.24.0), VIM,
crmn, preprocessCore, sva, dplyr (>= 0.7), tidyr, tibble (>=
1.2), magrittr, rlang, stats, stringr, methods, ddpcr,
missForest
MsCoreUtils, BiocParallel, IRanges (>= 2.13.28), plyr, vsn,
grid, stats4, affy, impute, pcaMethods, MALDIquant (>= 1.16),
mzID (>= 1.5.2), digest, lattice, ggplot2, XML, scales, MASS,
Rcpp
data.table, log4r, methods, checkmate, utils, stringi
minpack.lm, ggplot2, utils, stats, grDevices
dplyr, gridExtra, stringr, stats, ggplot2, grDevices,
MSstatsTMT, MSstatsConvert, MSstats, data.table, Rcpp,
Biostrings, checkmate, ggrepel
limma, lme4, lmerTest, methods, data.table, stats, utils,
ggplot2, grDevices, graphics, MSstats, MSstatsConvert,
checkmate
MSstatsConvert, data.table, checkmate, MASS, limma, lme4,
preprocessCore, survival, utils, Rcpp, ggplot2, ggrepel,
gplots, marray, stats, grDevices, graphics, methods
dplyr, plyr, GenomicRanges, SummarizedExperiment,
DelayedArray, ggplot2, ggpubr, tibble, tidyr, S4Vectors,
sesameData, stringr, readr, methods, stats, Matrix, MASS,
rlang, pscl, IRanges, sfsmisc, progress, utils
ape, tidyr, ggplot2, magrittr, dplyr, Biostrings, ggrepel,
vegan, zoo, ggtree, tidytree (>= 0.3.5), MASS, methods, rlang,
tibble, grDevices, stats, utils, coin, ggsignif, patchwork,
ggstar, tidyselect, SummarizedExperiment, foreach, treeio
methods, ExperimentHub, BiocGenerics, S4Vectors, BumpyMatrix
BiocParallel, S4Vectors, IRanges, methods, ProtGenerics,
MsCoreUtils, DBI, utils
BiocParallel, S4Vectors, IRanges, MsCoreUtils, methods, stats
methods, ProtGenerics (>= 1.23.5), MsCoreUtils,
SummarizedExperiment, stats
data.table, utils, stats, GenomicRanges, BSgenome, Biostrings
cpp11 (>= 0.2.5), readr, S4Vectors, SummarizedExperiment,
bsseq, forcats, assertthat, AnnotationDbi, Rcpp, dplyr,
data.table, e1071, fs, GenomicRanges, ggthemes, glue,
patchwork, purrr, rlang, RSQLite, Rsamtools, scales, stats,
stringr, tibble, tidyr, utils, withr, zlibbioc
BiocGenerics, Biostrings, ggbeeswarm, ggiraph, ggthemes,
grDevices, IRanges, methods, pheatmap, RColorBrewer, stats,
utils
Seurat, SingleCellExperiment, SummarizedExperiment, ks,
Matrix, stats, methods
methods, SingleCellExperiment, parallel, irlba, Matrix,
DelayedArray, BiocSingular, SharedObject, stats
Rcpp (>= 1.0.3), BSgenome.Hsapiens.UCSC.hg38, data.table,
stringr, randomForest, xfun, stats, utils, parallel, graphics
dplyr, ggplot2, forcats, tibble, gridExtra, magrittr, readr,
tidyselect, grid, stats, stringr, RColorBrewer
checkmate, curl, digest, dplyr, httr, igraph, jsonlite, later,
logger, magrittr, progress, purrr, rappdirs, readr(>= 2.0.0),
readxl, rlang, stats, stringr, tibble, tidyr, tidyselect,
tools, utils, xml2, yaml
Rcpp (>= 0.12.4), parallel, data.table, graph, Rgraphviz,
gtools, igraph, methods, RColorBrewer, grDevices, car, dplyr,
smatr, ggplot2, ggrepel, stringr
data.table, MultiAssayExperiment, ConsensusClusterPlus,
igraph, ggplotify, matrixStats, RColorBrewer, clusterRepro,
CoreGx, caret, survminer, methods, S4Vectors, BiocGenerics,
survival, stats, plyr, dplyr, MatrixGenerics, BiocParallel,
rlang, piano, scales, survcomp, genefu, ggplot2, switchBox,
reportROC, pROC, verification, utils
graph, igraph, KEGGgraph, clusterProfiler, ggplot2, plyr,
tidyr, magrittr, stats, methods, utils
broom, caret, clisymbols, ComplexHeatmap, crayon, dplyr,
e1071, ggcorrplot, ggplot2, ggraph, ggrepel, glasso (>= 1.11),
glmnet, impute, knitr, limma, magrittr, mixOmics, MSnbase (>=
2.12), patchwork, qpdf, randomForest, RankProd (>= 3.14),
rmarkdown, tibble, tidyr, vegan
pheatmap, ggplot2, RColorBrewer, grDevices,
SummarizedExperiment, limma
BiocGenerics, methods, GenomicRanges, IRanges, S4Vectors,
edgeR, cli, utils
BiocGenerics, Biobase, S4Vectors, SummarizedExperiment,
MultiAssayExperiment, BiocParallel, ggplot2, magicaxis,
RColorBrewer, parallel, caTools, methods, downloader, stats,
utils, graphics, grDevices, reshape2, jsonlite, data.table,
glue
igraph, Matrix, foreach, doParallel, dplyr, stats, utils,
parallel
ruv, e1071, dendextend, limma, pcaMethods, stats,
RColorBrewer, circlize, dplyr, igraph, pheatmap,
preprocessCore, tidyr, rlang, graphics, grDevices, utils,
SummarizedExperiment, methods, S4Vectors, BiocGenerics,
ggplot2, GGally, ggdendro, ggpubr, network, reshape2, ggtext
ape, bioDist, BiocStyle, Biostrings, colourpicker, data.table,
DT, energy, ExperimentHub, ggplot2, gridExtra, pbapply,
RColorBrewer, RCurl, shiny, shinyBS, shinyjs, OmaDB, plyr,
xml2, zoo
Matrix, GenomicRanges, GenomeInfoDb, supraHex, scales,
grDevices, ggrepel, ROCR, randomForest, glmnet, lattice, caret,
plot3D, stats, methods, MASS, IRanges, BiocGenerics, dplyr,
tidyr, ggnetwork, osfr, RCircos, purrr, readr, tibble
bnlearn (>= 4.7), C50 (>= 0.1.2), MASS, matrixStats, partykit,
Rgraphviz, WGCNA, GO.db, impute, preprocessCore, grDevices,
graphics, stats, utils, parallel, pheatmap (>= 1.0.8), dplyr,
gdata
ggplot2, gridExtra, mclust, diptest, rlist, shiny, DT,
LaplacesDemon, purrr, shinyjs, readr, grDevices, stats, utils
DAPAR (>= 1.24.5), DAPARdata (>= 1.22.2), rhandsontable,
data.table, shinyjs, DT, shiny, shinyBS, shinyAce, highcharter,
htmlwidgets, webshot, R.utils, shinythemes, XML,later,
rclipboard, shinycssloaders, future, promises, colourpicker,
BiocManager, shinyjqui,shinyTree, shinyWidgets, sass, tibble
methods, grDevices, graphics, utils, BiocGenerics, S4Vectors,
IRanges, BiocManager, Biobase, Biostrings, BSgenome, Rsamtools,
GenomicFeatures, ShortRead, BiocParallel, GenomeInfoDb,
rtracklayer, GenomicFiles, AnnotationDbi, tools
RcppAnnoy, igraph, NbClust, Rtsne, ggplot2, methods, pracma,
umap, grDevices, graphics, stats
httr, methods, RJSONIO, XML, utils, BiocGenerics, igraph,
stats, graph, R.utils, dplR, uchardet, glue, RCurl, base64url,
base64enc, IRkernel, RColorBrewer
RColorBrewer, ICS, ICSNP, cellHTS2, geneplotter, gplots, grid,
hwriter, lattice, latticeExtra, limma, methods, splots (>=
1.13.12), abind, locfit, Biobase
Rcpp (>= 1.0.6), dada2, ggplot2, readr, doParallel, foreach,
grDevices, stats, utils
AUCell (>= 1.1.6), BiocGenerics, data.table, feather,
graphics, GenomeInfoDb, GenomicRanges, arrow (>= 2.0.0), dplyr,
tibble, GSEABase, methods, R.utils, stats,
SummarizedExperiment, utils
rappdirs, methods, utils, git2r, httr, S4Vectors
utils, stats, BiocParallel, batchtools, DiagrammeR, shiny,
R.utils, codetools, basilisk
httr, jsonlite, utils, magick (>= 2.5.1), data.table,
doParallel, foreach, parallel
neo4r, utils, getPass, jsonlite, purrr, magrittr, data.table,
rlang, ReactomeContentService4R, doParallel, parallel, foreach
Rcpp (>= 1.0.2), graphics, stats, data.table, elitism,
methods, S4Vectors, IRanges, GenomicRanges, matrixStats,
reldist, doParallel, foreach, parallel, qvalue, DESeq2,
ggplot2, BiocFileCache
annotate (>= 1.21.0), graph (>= 1.21.0), Biobase, RBGL (>=
1.17.0), hypergraph (>= 1.15.2), AnnotationDbi
BiocGenerics, S4Vectors, IRanges, utils, SummarizedExperiment,
SingleCellExperiment
S4Vectors, SummarizedExperiment, data.table, seriation,
ComplexHeatmap, circlize, methods, BiocParallel, randomcoloR,
edgeR, openxlsx, sva, stats, DESeq2, Matrix, grid
methods, utils, stats, S4Vectors, BiocGenerics, GenomicRanges,
DelayedArray
AnnotationHub, BiocFileCache, BiocGenerics, ExperimentHub,
HDF5Array, S4Vectors, SingleCellExperiment, SpatialExperiment,
SummarizedExperiment, Matrix, methods, utils
BiocGenerics, Biostrings, BSgenome, GenomeInfoDb,
GenomicRanges, data.table, grDevices, plyr, IRanges,
RColorBrewer, stats, QuasR
methods, Matrix, S4Vectors, DelayedArray, DelayedMatrixStats,
BiocNeighbors, BiocParallel, BiocSingular, stats, utils, Rcpp,
beachmat, parallel
Seurat, SingleCellExperiment, SummarizedExperiment, dplyr,
methods, ggplot2, scater (>= 1.13), scran, igraph, shiny, jpeg,
magrittr, utils, S4Vectors, DropletUtils, jsonlite, png
BiocFileCache, DropletUtils, rjson, magick, grDevices,
S4Vectors, SummarizedExperiment, BiocGenerics, utils
methods, IRanges, MsCoreUtils (>= 1.3.3), graphics, grDevices,
stats, tools, utils, fs, BiocGenerics
assertthat, Biostrings, stringr, dplyr, methods, rlang,
GenomicFeatures, IRanges, S4Vectors, SummarizedExperiment,
GenomeInfoDb,
utils, stats, tools, Matrix, BiocGenerics (>= 0.37.0),
S4Vectors (>= 0.27.12), IRanges (>= 2.23.9), GenomeInfoDb (>=
1.13.1), DelayedArray (>= 0.15.10)
ASSIGN (>= 1.23.1), GSVA, singscore, methods, ComplexHeatmap,
RColorBrewer, ggplot2, S4Vectors, reshape2, ROCit, DESeq2, DT,
edgeR, gdata, SummarizedExperiment, magrittr, stats, rlang,
BiocParallel, BiocGenerics
ggplot2, shiny, plyr, grid, fastICA, igraph, combinat, mgcv,
mclust, gplots, methods, stats, Matrix, SummarizedExperiment,
DelayedArray, S4Vectors
graphics, grDevices, methods, ncdf4, stats, utils, assertthat
SummarizedExperiment, S4Vectors, Biobase, BiocParallel,
ggplot2, tibble, dplyr, caTools, downloader, magrittr, methods,
reshape2, tidyr, data.table, assertthat, scales, graphics,
grDevices, parallel, stats, utils, limma, jsonlite
hash, ggplot2, stats, methods, igraph, utils, glmnet, vbsr,
grDevices, gplots, gtools, pvclust, R.utils, dqrng,
SummarizedExperiment, BiocParallel, matrixStats
methods, stats, Matrix, igraph, S4Vectors,
SummarizedExperiment
methods, BiocGenerics, utils, ape, rlang, dplyr,
SummarizedExperiment, BiocParallel, IRanges, treeio
magick, cowplot, scales, GenomicRanges, ShortRead, zoo,
ggplot2, reshape2, regioneR, IRanges, S4Vectors, magrittr,
dplyr, BSgenome, Biostrings, DESeq2, R.utils, Rsamtools,
stringr, Rbowtie2, methods, GenomeInfoDb, GenomicAlignments,
RColorBrewer, utils, grDevices, stats, org.Hs.eg.db, annotate,
TxDb.Hsapiens.UCSC.hg19.knownGene, rlang, GenomicFeatures,
BiocFileCache, rappdirs, fda, BiocGenerics
methods, stats, IRanges, shiny, shinycssloaders, shinyFiles,
ggplot2
utils, Biostrings, BSgenome, data.table, GenomicRanges,
IRanges, methods, Rcpp, stringi, S4Vectors, future.apply,
stringr, formattable, stats
AnnotationDbi, Biobase (>= 1.5.12), cluster (>= 1.9.1), GO.db
(>= 1.8.1), graphics, grDevices, KEGGREST (>= 1.30.1), multtest
(>= 1.6.0), stats (>= 2.1.0)
SingleCellExperiment, SummarizedExperiment, S4Vectors, scater,
stats, smurf, apeglm (>= 1.13.3), emdbook, mclust, clue,
dynamicTreeCut, matrixStats, dplyr, plyr, ggplot2,
ComplexHeatmap, forestplot, RColorBrewer, rlang, lpSolve, grid,
grDevices, graphics, utils, pbapply
assertthat, shiny, shinyjs, DESeq2, caret, plotly, ggplot2,
rentrez, reshape2, covr, ape, vegan, dplyr, magrittr,
MultiAssayExperiment, SummarizedExperiment, S4Vectors (>=
0.23.19), XML, forcats, scales, lattice, glmnet, tsne, plotROC,
DT, reactable, utils, limma, methods, stats, tibble,
biomformat, umap, Matrix, GUniFrac
AnnotationDbi, bit64, circlize, cluster, corrplot, data.table,
dplyr, getopt, ggdendro, ggplot2, gplots, ggrepel, graphics,
grDevices, grid, limma, MSstats, openxlsx, org.Hs.eg.db,
pheatmap, plotly, plyr, RColorBrewer, scales, seqinr, stats,
stringr, tidyr, UpSetR, utils, VennDiagram, yaml
abind, assertive, BiocFileCache, BiocGenerics, colorspace,
data.table, edgeR, ggplot2, ggrepel, graphics, grDevices, grid,
gridExtra, limma, magrittr, matrixStats, methods,
MultiAssayExperiment, parallel, pcaMethods, rappdirs, rlang,
R.utils, readxl, S4Vectors, scales, stats, stringi,
SummarizedExperiment, tidyr, tools, utils
cowplot, circlize, dplyr, ggplot2, ggdendro, ggridges,
graphics, grDevices, magrittr, plyr, proxy, RColorBrewer,
rlang, scales, shiny, stats, SummarizedExperiment, S4Vectors,
tibble, tidyr, vegan, viridis, utils
utils, methods, parallel, reticulate, dir.expiry,
basilisk.utils
SummarizedExperiment, S4Vectors, BiocGenerics, Rcpp, stats,
methods, utils, igraph, BiocNeighbors, BiocSingular, Matrix,
DelayedArray, DelayedMatrixStats, BiocParallel, scuttle,
ResidualMatrix, ScaledMatrix, beachmat
methods, DelayedArray (>= 0.15.14), BiocGenerics, Matrix, Rcpp
DT (>= 0.3), dplyr (>= 0.7.2), shiny (>= 1.0.5), AlgDesign (>=
1.1.7.3), import (>= 1.1.0), methods, AnnotationDbi,
shinythemes, Biobase, geNetClassifier, org.Hs.eg.db,
org.Bt.eg.db, DOSE, clusterProfiler, reactome.db, ReactomePA,
DiagrammeR(<= 1.01), visNetwork, htmlwidgets, plyr, tibble,
GO.db
R6, methods, chk, lgr, progress, lifecycle, XML, stringr,
plyr, yaml, jsonlite, RCurl, Rcpp, rappdirs, stats, openssl,
RSQLite, withr
utils, XML, AnnotationDbi, progress, stringr, httr, digest,
BiocFileCache, rappdirs, xml2
stats, methods, utils, cluster, Matrix, Rcpp, igraph,
S4Vectors, BiocParallel, BiocNeighbors
CellNOptR, matrixStats, snowfall, Rgraphviz, cluster,
flexclust, stats, RColorBrewer, epiNEM, mnem, Biobase, methods,
utils, graphics, graph, affy, binom, limma, sva, vsn, rmarkdown
IRanges (>= 2.23.9), GenomeInfoDb, scales, stats, graphics,
Biobase, locfit, gtools, data.table (>= 1.11.8), S4Vectors (>=
0.27.12), R.utils (>= 2.0.0), DelayedMatrixStats (>= 1.5.2),
permute, limma, DelayedArray (>= 0.15.16), Rcpp, BiocParallel,
BSgenome, Biostrings, utils, HDF5Array (>= 1.19.11), rhdf5
biomaRt, binr, cowplot, data.table, dplyr, DT, fastmatch,
fgsea, ggplot2, ggrepel, graphics, highcharter, httr, limma,
methods, parallel, pbapply, R.utils, readxl, reshape2, rhdf5,
scales, shiny, stats, tibble, tools, utils
BiocFileCache, RColorBrewer, cgdsr, genefilter, gplots,
grDevices, stats, utils, openxlsx
utils, DT, htmltools, vroom, plyr, dplyr, magrittr, jsonlite,
rapportools, basilisk, reticulate, shinyBS, shinycssloaders,
rintrojs
plyr, foreach, ggplot2, RColorBrewer, grid, scales, gtable,
grDevices, graphics, matrixStats, doParallel, digest, methods,
reshape2, S4Vectors, data.table, Rcpp, RcppEigen, uwot,
enrichR, SummarizedExperiment, MCMCprecision, ggrepel, Rtsne,
withr, scater (>= 1.14.4), scran, SingleCellExperiment, dbscan,
DelayedArray, stringr, Matrix, ComplexHeatmap,
multipanelfigure, circlize
tiff, graphics, stats, utils, reshape2, parallel, doParallel,
grDevices, matrixStats, FME, SpatialTools, sp, vioplot,
FactoMineR, Hmisc
BiocParallel, broom.mixed, dirmult, dplyr, edgeR,
fitdistrplus, lme4, magrittr, MASS, methods, mice, multcomp,
purrr, rlang, S4Vectors, stats, stringr, SummarizedExperiment,
survival, tibble, tidyr, utils
methods, grid, Rsamtools, GenomeInfoDb, GenomicAlignments,
RColorBrewer, graphics, AnnotationDbi, RCircos, org.Hs.eg.db,
org.Mm.eg.db, rmarkdown, graph, Rgraphviz, DT, plyr, dplyr,
BiocStyle, checkmate, gtools, magick
BSgenome, GenomicRanges, seqinr, e1071, Biostrings,
GenomeInfoDb, IRanges, utils, stringr, stats
methods, NMF, RColorBrewer, ape (>= 5.0), cluster, stats,
limma, howmany, locfdr, matrixStats, graphics, parallel,
BiocSingular, kernlab, stringr, S4Vectors, grDevices,
DelayedArray (>= 0.7.48), HDF5Array (>= 1.7.10), Matrix, Rcpp,
edgeR, scales, zinbwave, phylobase, pracma, mbkmeans
AnnotationDbi, downloader, DOSE (>= 3.13.1), dplyr, enrichplot
(>= 1.9.3), GO.db, GOSemSim, magrittr, methods, plyr, qvalue,
rlang, stats, tidyr, utils, yulab.utils
cowplot, dplyr, entropy, fgsea, ggplot2, Matrix, readr, rlang,
scales, stringr, tibble, tidyr, stats, methods,
SingleCellExperiment, SummarizedExperiment, matrixStats,
S4Vectors, proxy, httr, utils
grDevices, graphics, grid, stats, utils, ComplexHeatmap (>=
2.5.4), matrixStats, GetoptLong, circlize (>= 0.4.7),
GlobalOptions (>= 0.1.0), clue, parallel, RColorBrewer,
cluster, skmeans, png, mclust, crayon, methods, xml2,
microbenchmark, httr, knitr, markdown, digest, impute, brew,
Rcpp (>= 0.11.0), BiocGenerics, eulerr, foreach, doParallel,
irlba
GenomicRanges, parallel, grid, ggplot2, reshape2, scales,
DelayedArray, rtracklayer, DelayedMatrixStats, Matrix, RMTstat
tcltk, knitr (>= 1.2), markdown, ROCR, lattice (>= 0.16),
gplots, gtools, caTools, grid, KernSmooth, MASS, ggplot2,
stringr, modeest, edgeR, limma, vioplot, methods, utils, stats,
grDevices, graphics
dbscan, fpc, factoextra, Biobase, BiocFileCache, parallel,
doParallel, foreach, SummarizedExperiment, biomaRt,
AnnotationDbi, methods, dplyr, scran, scater, pheatmap,
ggplot2, gridExtra, SingleCellExperiment, stats, utils, scales,
grDevices, graphics, Rtsne, GEOquery, clusterProfiler, stringr,
tools
slingshot (>= 1.9), mgcv, RANN, stats, SingleCellExperiment,
SummarizedExperiment, utils, magrittr, dplyr (>= 1.0), Ecume
(>= 0.9.1), methods, pbapply, matrixStats, BiocParallel,
TrajectoryUtils, igraph
edgeR, DESeq2, capushe, Rmixmod, e1071, BiocParallel, ggplot2,
scales, HTSFilter, corrplot, HTSCluster, grDevices, graphics,
stats, methods, compositions, mvtnorm
CARNIVAL, dorothea, igraph, dplyr, utils, stringr, readr,
rlang, tibble, purrr, AnnotationDbi, biomaRt, org.Hs.eg.db,
visNetwork
Rcpp, Matrix, BiocGenerics, Rsamtools, edgeR, limma, methods,
S4Vectors, IRanges, GenomeInfoDb, stats, BiocParallel, metapod,
utils
AnnotationHub, ExperimentHub, S4Vectors, dplyr, magrittr,
purrr, rlang, stringr, tibble, tidyr, tidyselect
Biobase, flowCore, flowDensity, ggplot2, GGally, graphics,
grDevices, methods, stats, utils
S4Vectors, BiocParallel, HDF5Array, DelayedArray,
RColorBrewer, viridis, utils, SummarizedExperiment, tools,
graphics, raster, grDevices, stats, ggplot2, ggbeeswarm,
svgPanZoom, svglite, shiny, shinydashboard, matrixStats, rhdf5
stats, methods, assertthat, graph, pcalg, purrr, tidyverse,
Matrix, ggraph, tidygraph, ggplot2, rlang, expm, MASS,
CombinePValue, edgeR, epiNEM, igraph, metap, mnem, naturalsort,
ppcor, glm2, graphite, reshape2, dplyr, glue, Rgraphviz,
harmonicmeanp, org.Hs.eg.db, logger
methods, rJava, BiocParallel, stats, Biobase,
SummarizedExperiment, corpcor, geometry, NMF, nnls, DMwR2,
pcaPP, apcluster, graphics
methods, Matrix, quadprog(>= 1.5-5), GenomicRanges, stats,
GenomicFeatures, Biostrings, BiocGenerics, S4Vectors, plyr,
utils, graphics, BSgenome.Hsapiens.UCSC.hg19,
TxDb.Hsapiens.UCSC.hg19.knownGene, VariantAnnotation,
SummarizedExperiment, ggseqlogo, gridExtra, data.table,
GenomeInfoDb, readxl
broom, dplyr, GSVA, magrittr, Matrix, purrr, rlang, speedglm,
stats, stringr, tibble, tidyr, tidyselect, viper, withr
S4Vectors, SummarizedExperiment, limma, edgeR, DEXSeq,
GenomicRanges, Rsubread, ggplot2, rtracklayer, ComplexHeatmap,
ggrepel, stringi, methods, stats, GenomeInfoDb, dplyr,
matrixStats, IRanges, ensembldb, viridisLite
methods, colorspace (>= 1.4), gridExtra, cowplot, reshape2,
pheatmap, grDevices, ggrepel, ggridges, stats, utils,
SummarizedExperiment, SingleCellExperiment, S4Vectors
utils, RSQLite, UniProt.ws, biomaRt,ensembldb,
BiocFileCache,dplyr,rappdirs, AnnotationFilter, S4Vectors
Biobase (>= 2.50.0), BiocFileCache (>= 1.14.0), BiocGenerics
(>= 0.36.0), BiocParallel (>= 1.24.1), biomaRt (>= 2.46.0),
Biostrings (>= 2.58.0), edgeR (>= 3.32.0), GenomeInfoDb (>=
1.26.0), genomeIntervals (>= 1.46.0), GenomicAlignments (>=
1.26.0), GenomicRanges (>= 1.42.0), SummarizedExperiment (>=
1.20.0), graphics, IRanges (>= 2.24.0), LSD (>= 4.1-0), locfit,
methods, parallel, rappdirs (>= 0.3.1), Rsamtools (>= 2.6.0),
S4Vectors (>= 0.28.0), ShortRead (>= 1.48.0), utils
snow, tools, snowfall, RUnit, methods, ChemmineR, RCurl,
digest, BiocGenerics, RcppAnnoy (>= 0.0.9)
graphics, stats, GenomicRanges, S4Vectors, IRanges, limma,
edgeR, methods, SummarizedExperiment, BiocGenerics, utils
cowplot, DOSE (>= 3.16.0), ggplot2, ggraph, graphics, grid,
igraph, methods, plyr, purrr, RColorBrewer, reshape2, stats,
utils, scatterpie, shadowtext, GOSemSim, magrittr, ggtree
BoolNet, e1071, gtools, stats, igraph, utils, lattice,
latticeExtra, RColorBrewer, pcalg, minet, grDevices, graph,
mnem, latex2exp
stats, methods, utils, Rsamtools, GenomicRanges, BiocGenerics,
GenomeInfoDb, SummarizedExperiment, VariantAnnotation, stringi,
data.table
EnvStats, ggplot2, rtracklayer, GenomicRanges, IRanges,
rstatix, ggpubr, methods, stats, utils, dplyr
Rcpp, magrittr, data.table, SummarizedExperiment, methods,
GenomeInfoDb, GenomicRanges, rtracklayer, IRanges, Rsamtools,
bamsignals, csaw, S4Vectors, limma, stats, Rhdf5lib, rhdf5,
Matrix, MASS, scales, ggpubr, ggplot2, GreyListChIP, pheatmap,
grDevices
FCBF, parallel, progress, dplyr, ggplot2, ggrepel, igraph,
grid, intergraph, stringr, clusterProfiler, data.table,
grDevices, methods, network, scales, sna, utils, stats,
SingleCellExperiment, pathwayPCA, Matrix
openxlsx, tibble, dplyr, data.table, ggplot2, ggthemes,
forcats, RColorBrewer, RCy3, utils, stats
graph, stats, e1071, methods, gRbase, jsonlite, BiocFileCache,
curl
Biobase, BiocGenerics (>= 0.29.2), grDevices, graphics,
methods, stats, utils, stats4, Rcpp, matrixStats, cytolib (>=
2.3.4), S4Vectors
effsize, furrr, future, purrr, ggiraph, ggrepel, ggplot2,
igraph, Matrix, matrixStats, stats, utils, visNetwork,
htmlwidgets, grDevices, methods, stringr, stringi, Rdpack,
data.table (>= 1.9.5), gridExtra,
Biobase, BiocGenerics, cytolib (>= 2.3.9), lattice,
latticeExtra, XML, ggplot2, graph, graphics, grDevices,
methods, stats, stats4, utils, RBGL, tools, Rgraphviz,
data.table, dplyr, Rcpp, scales, matrixStats, RcppParallel,
RProtoBufLib, digest, aws.s3, aws.signature, flowCore(>=
2.1.1), ncdfFlow(>= 2.25.4), DelayedArray, S4Vectors
clisymbols, crayon, dplyr, fgsea, ggplot2, ggraph, magrittr,
ontologyIndex, purrr, RecordLinkage, stringr, textclean,
tictoc, tidygraph, tidyr, vroom
BiocGenerics, AnnotationDbi, annotate, Biobase, graphics,
methods, stats, survival, grDevices
amap, impute, mclust, limma, graphics, stats, utils
Biostrings (>= 2.47.6), BSgenome (>= 1.47.3), data.table,
GenomeInfoDb, GenomicRanges (>= 1.31.8), GenomicAlignments (>=
1.15.6), S4Vectors (>= 0.17.25), ggplot2, gridBase, impute,
IRanges (>= 2.13.12), matrixStats, methods, parallel, plotrix,
plyr, readr, reshape2, Rsamtools (>= 1.31.2), seqPattern,
rtracklayer (>= 1.39.7), Rcpp (>= 0.12.14)
grDevices, graphics, methods, stats, utils, dbscan,
fastcluster, matrixStats
ggplot2, utils, rlang, ggnewscale, stats, ggtree
ape, aplot (>= 0.0.4), dplyr, ggfun, ggplot2 (>= 3.0.0), grid,
magrittr, methods, purrr, rlang, scales, tidyr, tidytree (>=
0.2.6), treeio (>= 1.8.0), utils, yulab.utils
Rcpp, DelayedMatrixStats, matrixStats, DelayedArray,
HDF5Array, SummarizedExperiment, BiocGenerics, methods, stats,
utils, splines
SummarizedExperiment, biomaRt, futile.logger, sparsebn,
sparsebnUtils, forcats, dplyr, glue, readr, httr, ggplot2,
survminer, reshape2, stringr, parallel, methods, loose.rock (>=
1.0.12)
cowplot, e1071, epiR, dplyr, dtangle, ggplot2, ggplotify,
grDevices, limSolve, magrittr, MASS, nnls, parallel, pheatmap,
purrr, rlang, stats, tibble, tidyr, utils
S4Vectors (>= 0.9.25), IRanges, GenomeInfoDb, GenomicRanges
(>= 1.29.6), GenomicFeatures, readr, Biostrings, AnnotationDbi,
BiocFileCache, snpStats, VariantAnnotation, AnnotationHub
httr, jsonlite, dplyr, tibble, tidyr, BiocFileCache, tools,
utils
methods, S4Vectors, IRanges, shiny, SummarizedExperiment,
SingleCellExperiment, ggplot2, DT, stats, colourpicker,
shinyAce
methods, utils, ExperimentHub, S4Vectors, DelayedArray,
HDF5Array
stringr, ontologyIndex, curl, ggplot2, readr, rvest, tidyr,
xml2, maps, rlang
graphics, grDevices, RColorBrewer, gplots, futile.logger,
stats, utils, methods, ape, phyclust, Matrix, fastcluster,
dplyr, HiddenMarkov, ggplot2, edgeR, coin, caTools, digest,
RANN, leiden, reshape, rjags, fitdistrplus, future, foreach,
doParallel, BiocGenerics, SummarizedExperiment,
SingleCellExperiment, tidyr, parallel, coda, gridExtra,
argparse
ggplot2, class, concaveman, grid, BiocParallel, spatstat.core,
spatstat.geom, BiocGenerics, S4Vectors, methods, spicyR, purrr,
stats, data.table, dplyr, tidyr
data.table, grDevices, methods, RColorBrewer, Rhtslib,
survival
methods, DelayedArray, Rcpp, S4Vectors, SingleCellExperiment,
SummarizedExperiment, ClusterR, benchmarkme, Matrix,
BiocParallel
xfun, utils, fs, GenomicRanges, readr, cmdfun, dplyr, magrittr
Biostrings, dplyr, cmdfun (>= 1.0.2), GenomicRanges, ggplot2,
ggseqlogo, magrittr, matrixStats, methods, patchwork, processx,
purrr, rlang, readr, stats, tools, tibble, tidyr, utils,
usethis, universalmotif (>= 1.9.3), xml2
AnnotationDbi, DOSE, enrichplot, GOSemSim, MeSH.db, methods,
utils, yulab.utils
methods, mgcv, caret, S4Vectors, stats, utils, rlang,
graphics, matrixStats, tidyr
rtracklayer, gplots, tools, GenomicAlignments, GenomeInfoDb,
GenomicFeatures, IRanges, ggplot2, muStat, Rsamtools,
matrixStats, purrr, data.table, magrittr, methods, utils,
ensembldb, EnsDb.Hsapiens.v86, stringr
shiny, shinyjs, seriation, BiocParallel, seqinr, Biostrings,
Rfast, grDevices, graphics, stats, utils, tools, methods,
shinyFiles, data.table, SummarizedExperiment
SingleCellExperiment, flexmix, ggplot2, splines, BiocParallel
methods, stats, utils, RCurl, httr, stringr, Hmisc, energy,
entropy, gplots, glmnet, impute, limma,
pcalg,TCGAbiolinks,dplyr,SummarizedExperiment, ctc,
InvariantCausalPrediction, Category, GOstats, org.Hs.eg.db
methods, stats, S4Vectors, BiocGenerics, BiocParallel,
DelayedArray, scater, ggtree, ggnewscale, viridis, tibble,
tidytree, tidygraph, rlang, purrr, tidyr, dplyr, ape,
DirichletMultinomial
methods, stats, utils, MASS, ape, decontam, vegan,
BiocGenerics, S4Vectors, IRanges, Biostrings, DECIPHER,
BiocParallel, DelayedArray, DelayedMatrixStats, scuttle,
scater, DirichletMultinomial, rlang, dplyr, tibble, tidyr
methods, utils, BiocGenerics, ExperimentHub, Biostrings, ape
shinyjs (>= 2.0.0), shinydashboard, shinycssloaders,
shinyWidgets, rmarkdown (>= 1.9.0), DESeq2, RColorBrewer,
dplyr, tidyr, purrr, rlang, knitr, readr, DT (>= 0.12.0),
biomformat, tools, stringr, vegan, matrixStats, heatmaply, car,
broom, limma, reshape2, tibble, forcats, lubridate, methods,
plotly (>= 4.9.1)
BiocNeighbors, SingleCellExperiment, Matrix (>= 1.3-0),
S4Vectors, stats, stringr, methods, igraph, irlba, cowplot,
BiocParallel, BiocSingular, limma, ggplot2, tibble,
matrixStats, ggraph, gtools, SummarizedExperiment, patchwork,
tidyr, dplyr, ggrepel, ggbeeswarm, RColorBrewer, grDevices
methods, stats, Rcpp, MCL, RSpectra, apcluster, bigmemory,
foreach, ggplot2, parallel, parallelDist, reshape2, plyr,
biganalytics, stringr, Hmisc, utils
purrr, MASS, pscl, assertthat, caTools, dplyr, pheatmap,
reshape2, corrplot, grDevices, graphics, stats, utils,
data.table, R.utils
assertthat, caret, deldir, digest, distances, dplyr, filelock,
furrr (>= 0.2.0), ggplot2, MASS, purrr, ranger, readr, rlang,
rlist, R.utils, stats, stringr, tibble, tidyr, withr
cluster, graph, Rgraphviz, flexclust, lattice, naturalsort,
snowfall, stats4, tsne, methods, graphics, stats, utils,
Linnorm, data.table, Rcpp, RcppEigen, matrixStats, grDevices,
e1071, ggplot2, wesanderson
S4Vectors, MASS (>= 1.0.0), limma, viridis, edgeR, graphics,
methods, grDevices, reshape2, NMI, zoo, ClusterR, splines,
matrixStats
ExperimentHub, utils, GSEABase, org.Mm.eg.db, org.Hs.eg.db,
AnnotationDbi, methods, stats
stats, methods, lme4, purrr, BiocParallel, Matrix, MASS,
limma, SummarizedExperiment, codetools
data.table, dplyr, HiCcompare, edgeR, BiocParallel, qqman,
pheatmap, methods, GenomicRanges, graphics, stats, utils,
pbapply, GenomeInfoDbData, GenomeInfoDb, aggregation
golem, config, R6, shiny, shinydashboard, DT, dplyr, stringr,
anyLib, caret, biosigner, mixOmics, stats, DESeq2,
clusterProfiler, rWikiPathways, ReactomePA, enrichplot, ppcor,
metap, infotheo, igraph, networkD3, easyPubMed, utils,
htmltools, rmarkdown
stats, utils, methods, igraph, Matrix, BiocGenerics,
BiocParallel, IRanges, S4Vectors, DelayedArray,
DelayedMatrixStats, SummarizedExperiment, BiocNeighbors,
BiocSingular, ScaledMatrix, beachmat, scuttle, metapod, scran,
batchelor, uwot
BiocParallel, blme, ComplexHeatmap, data.table, DESeq2, dplyr,
edgeR, ggplot2, glmmTMB, grDevices, grid, limma, lmerTest,
lme4, Matrix, matrixStats, methods, progress, purrr, S4Vectors,
scales, scater, scuttle, sctransform, stats,
SingleCellExperiment, SummarizedExperiment, variancePartition,
viridis
SummarizedExperiment, VariantAnnotation, cowplot, Biostrings,
base, methods, magrittr, tibble, tidyr, gtools, gridExtra,
maftools, MCMCprecision, MASS, matrixTests, data.table, dplyr,
rlang, BSgenome, GenomeInfoDb, GenomicFeatures, GenomicRanges,
IRanges, S4Vectors, uwot, ggplot2, stringr,
TxDb.Hsapiens.UCSC.hg19.knownGene,
TxDb.Hsapiens.UCSC.hg38.knownGene, BSgenome.Hsapiens.UCSC.hg19,
BSgenome.Hsapiens.UCSC.hg38, BSgenome.Mmusculus.UCSC.mm9,
BSgenome.Mmusculus.UCSC.mm10, deconstructSigs, decompTumor2Sig,
topicmodels, ggrepel, withr, plotly, utils, factoextra,
cluster, ComplexHeatmap, stringi, philentropy
e1071, nnet, randomForest, naturalsort, graphics, stats,
utils, matrixStats, epiNEM
Biostrings, checkmate, dplyr (>= 1.0.0), DT, forcats,
ggdendro, grDevices (>= 3.6.0), grid, lifecycle, lubridate,
methods, pander, plotly (>= 4.9.4), readr, reshape2, rmarkdown,
scales, stats, stringr, tidyr, tidyselect (>= 0.2.3), utils,
zoo
stats, Rcpp, RcppProgress, dplyr, tidyr, ggplot2, progress
fastICA, tsne, scatterplot3d, pixmap, fdrtool, ape, biomaRt,
Biobase, RcppParallel, Rcpp, methods, graph, XML, png, RCurl
methods, Rcpp (>= 0.12.0), rstan (>= 2.18.1), rstantools (>=
2.0.0), tibble, dplyr, magrittr, purrr, future, furrr, tidyr
(>= 0.8.3.9000), lifecycle, ggplot2, foreach, tidybayes, edgeR,
benchmarkme, parallel, rlang, stats, utils, graphics
S4Vectors, IRanges, GenomicRanges, randomForest, ModelMetrics,
e1071, PRROC, pROC, caret, utils, cluster, dbscan, doSNOW,
foreach, pbapply, stats, parallel
AnnotationDbi, BiocParallel, data.table, dplyr, DESeq2,
IRanges, GenomicRanges, GenomicFeatures, GenomicAlignments,
GenomeInfoDb, ggplot2, Gviz, methods, rlang, S4Vectors,
SummarizedExperiment, stats, tibble
GenomicRanges, stats, soGGi, methods, utils, S4Vectors,
R.utils, dplyr, magrittr, tidyr, IRanges, rjson,
ChIPseeker,GenomicFeatures,TxDb.Hsapiens.UCSC.hg19.knownGene,TxDb.Hsapiens.UCSC.hg38.knownGene,TxDb.Mmusculus.UCSC.mm10.knownGene,
TxDb.Mmusculus.UCSC.mm9.knownGene,org.Hs.eg.db,org.Mm.eg.db,rGREAT,
pheatmap, ggplot2, EnrichedHeatmap, ComplexHeatmap, grid,
circlize, BiocParallel, rtracklayer, GenomeInfoDb, grDevices,
rlang, Cairo, tiff, Rsamtools
AnnotationDbi, AnnotationHub, BiocFileCache, cluster,
colourpicker, data.table, digest, dplyr, DT (>= 0.2), edgeR,
fastICA, fastmatch, ggplot2, ggrepel, graphics, grDevices,
highcharter (>= 0.5.0), htmltools, httr, jsonlite, limma,
pairsD3, plyr, purrr, Rcpp (>= 0.12.14), recount, Rfast,
R.utils, reshape2, shinyjs, stringr, stats,
SummarizedExperiment, survival, tools, utils, XML, xtable,
methods
Biobase, bit64, chron, data.table, doParallel, DT, enviPat,
foreach, ggplot2, graphics, grDevices, ggpubr, gridExtra,
Hmisc, methods, minpack.lm, MSnbase, parallel, plotly, rhdf5,
rlang, Rcpp, shiny, shinyscreenshot, signal, scales, stats,
utils
Biobase, methods, knitr, tools, xtable, pander, S4Vectors
Biobase, limSolve, MASS, methods, preprocessCore, stats,
SummarizedExperiment, ggplot2, tidyr, rlang, utils
IRanges, BiocGenerics, ggplot2, reshape2, EnvStats, ExtDist,
matrixStats, S4Vectors
utils, methods, knitr (>= 1.32), rmarkdown, CodeDepends,
dir.expiry, filelock, BiocStyle
BiocGenerics, biomaRt, Biostrings, circlize, GenomeInfoDb,
GenomicFeatures, graphics, grDevices, httr, IRanges, methods,
parallel, RSQLite, Rsamtools, rtracklayer, S4Vectors, stats,
stringr, utils
BiocStyle (>= 2.5.19), derfinder (>= 1.25.3), DEFormats,
DESeq2, GenomeInfoDb, GenomicRanges, knitr (>= 1.6),
knitrBootstrap (>= 0.9.0), methods, RefManageR, rmarkdown (>=
0.9.5), S4Vectors, SummarizedExperiment, utils
BiocFileCache, jsonlite, xml2, RCurl, utils
locfdr, SummarizedExperiment, BiocParallel, limma, pbapply,
ggplot2, boot, Matrix, stats, methods, graphics
dplyr, ggplot2, caret, ROCR, pROC, data.tree, methods, stats,
e1071, ape, kernlab, utils
igraph, Matrix, BiocGenerics, BiocParallel, BiocNeighbors,
BiocSingular, S4Vectors, SummarizedExperiment,
SingleCellExperiment, scran, scater, scuttle, bluster, methods,
DelayedArray, xgboost, stats, utils, mbkmeans
glmnet (> 2.0), caret (>= 6.0), ggplot2 (>= 2.2.1),
fastcluster, dplyr, Rcpp, RcppArmadillo, RcppParallel,
grDevices, graphics, stats, utils, DESeq2, locfit
stats, methods, assertthat, tibble, dplyr, purrr, stringr,
Rdpack, matrixStats, BiocParallel, elasticnet, sparsepca,
cluster, kernlab, origami, RSpectra, coop, Matrix,
DelayedArray, ScaledMatrix, MatrixGenerics
Biostrings, dplyr, reshape2, ggalluvial, stringr, vegan,
powerTCR, SummarizedExperiment, plyr, parallel, doParallel,
methods, utils, rlang
stats, utils, methods, grid, gridExtra, Matrix, BiocGenerics,
S4Vectors, SummarizedExperiment, DelayedArray,
DelayedMatrixStats, beachmat, BiocNeighbors, BiocSingular,
BiocParallel, rlang, ggbeeswarm, viridis, Rtsne, RColorBrewer
graphics, stats, utils, aroma.light, BiocParallel, class,
cluster, compositions, diptest, edgeR, fpc, gplots, grDevices,
hexbin, limma, matrixStats, mixtools, RColorBrewer, boot,
rhdf5, RUVSeq, rARPACK, MatrixGenerics, SingleCellExperiment
methods, stats, utils, SingleCellExperiment,
SummarizedExperiment, MultiAssayExperiment, MsCoreUtils,
matrixStats, S4Vectors, dplyr, magrittr, rlang
SummarizedExperiment, S4Vectors, BiocGenerics, BiocParallel,
Rcpp, stats, methods, utils, Matrix, edgeR, limma, igraph,
statmod, DelayedArray, DelayedMatrixStats, BiocSingular,
bluster, metapod, dqrng, beachmat
S4Vectors, SummarizedExperiment, seriation, ComplexHeatmap,
circlize, methods, randomcoloR, stats, grid, grDevices
Biostrings, cowplot, dplyr, ggplot2, grid, igraph, magrittr,
methods, utils, yulab.utils
data.table, eulerr, GenomeInfoDb, GenomicAlignments,
GenomicRanges, ggplotify, grDevices, grid, IRanges, limma,
methods, pbapply, pbmcapply, png, RColorBrewer, Rsamtools,
rtracklayer, S4Vectors, stats, UpSetR
BiocParallel, grDevices, utils, stringr, tibble, illuminaio,
MASS, GenomicRanges, IRanges, grid, preprocessCore, S4Vectors,
randomForest, wheatmap, ggplot2, KernSmooth, graphics,
parallel, matrixStats, DNAcopy, stats, SummarizedExperiment
AnnotationDbi, ggplot2, data.table, ExperimentHub, HDF5Array,
magrittr, RSQLite, dplyr, fgsea, scales, methods, qvalue,
stats, utils, reshape2, visNetwork, BiocParallel, fastmatch,
reactome.db, Matrix, clusterProfiler, readr, DOSE, rhdf5,
GSEABase, DelayedArray, BiocGenerics
BiocGenerics, Biostrings, class, graphics, grDevices,
GenomeInfoDb, GenomicRanges, IRanges, nloptr, methods, stats,
utils, PMCMRplus
GOSemSim, ComplexHeatmap (>= 2.7.4), circlize, GetoptLong,
digest, tm, GO.db, org.Hs.eg.db, AnnotationDbi, slam, methods,
clue, grDevices, graphics, stats, utils, proxyC, Matrix,
cluster (>= 1.14.2)
ape, batchelor, BiocParallel, celldex, colourpicker,
colorspace, cowplot, cluster, ComplexHeatmap, data.table,
DelayedMatrixStats, DESeq2, dplyr, DT, ExperimentHub, fields,
ggplot2, ggplotify, ggrepel, ggtree, gridExtra, GSVA (>=
1.26.0), GSVAdata, igraph, KernSmooth, limma, MAST, Matrix,
matrixStats, methods, msigdbr, multtest, plotly, RColorBrewer,
ROCR, Rtsne, S4Vectors, scater, scMerge (>= 1.2.0), scran,
Seurat (>= 3.1.3), shiny, shinyjs, SingleR, sva, reshape2,
AnnotationDbi, shinyalert, circlize, enrichR, celda,
shinycssloaders, uwot, DropletUtils, scds (>= 1.2.0),
reticulate (>= 1.14), tools, tximport, fishpond, withr,
GSEABase, R.utils, zinbwave, scRNAseq (>= 2.0.2), TENxPBMCData,
yaml, rmarkdown, magrittr, scDblFinder, metap
Biobase, BiocGenerics, biomaRt, Biostrings, GenomeInfoDb,
GenomicFeatures, GenomicRanges, IRanges, methods, parallel,
Rsamtools, RSQLite, rtracklayer, S4Vectors, tools, utils
graphics, grDevices, igraph, matrixStats, methods, S4Vectors,
SingleCellExperiment, SummarizedExperiment
Rcpp, Matrix, matrixStats (>= 0.60.0), methods
av, BiocFileCache, data.table, DESeq2, edgeR, WGCNA,
flashClust, htmlwidgets, genefilter, ggplot2, ggdendro,
grImport, grid, gridExtra, gplots, igraph, HDF5Array, rsvg,
shiny, dynamicTreeCut, grDevices, graphics, ggplotify,
parallel, plotly, rols, rappdirs, stats, SummarizedExperiment,
shinydashboard, S4Vectors, utils, visNetwork, methods, xml2,
yaml
shiny, golem, ggplot2, cowplot, plotly, viridisLite,
shinyWidgets, Polychrome, sessioninfo, grid, grDevices,
methods, AnnotationHub, utils, png, scater, DT, ExperimentHub,
RColorBrewer, SummarizedExperiment, stats, graphics, S4Vectors,
IRanges, fields, benchmarkme, SingleCellExperiment,
BiocFileCache, jsonlite, tibble
Rcpp (>= 0.12.8), methods, devtools, S4Vectors, GenomeInfoDb,
rtracklayer, SummarizedExperiment, IRanges, GenomicRanges,
DESeq2, edgeR, baySeq, Rsamtools, GenomicFeatures,
GenomicAlignments, grDevices, Gviz, BiocParallel, BiocStyle,
BiocManager
assertthat, caret, dplyr, tidyr, rsample, methods, rlang,
utils, Biostrings, stats, SummarizedExperiment
GenomicRanges, GenomicFeatures (>= 1.31.3),
SummarizedExperiment, VariantAnnotation (>= 1.25.11), rjson,
ggplot2, limma, edgeR, DESeq2, GOstats, GO.db, annotate,
pheatmap, batchtools, yaml, stringr, assertthat, magrittr, DOT,
rsvg, IRanges, testthat, S4Vectors, crayon
BiocGenerics, jsonlite, remotes, GenomicFeatures,
GenomicRanges, IRanges, Rsamtools, ShortRead, rtracklayer
DT, assertthat, bsplus, crayon, dplyr, ggplot2, htmltools,
glue, magrittr, methods, plotly, rlang, rstudioapi, shinyAce,
shinyFiles, shinyWidgets, shinydashboard, shinydashboardPlus
(>= 2.0.0), shinyjqui, shinyjs, shinytoastr, stringr, stats,
styler, tibble, utils, vroom (>= 1.3.1), yaml, R6, RSQLite,
openssl
DESeq2, GGally, Rtsne, SummarizedExperiment, ape, dplyr,
ggplot2, ggrepel, ggtree, glmpca, pheatmap, plotly, tibble,
magrittr, DT, stats
scales, stats, utils, ggplot2, data.table, purrr, dplyr,
VariantAnnotation, GenomicRanges, MatrixGenerics
utils, igraph, methods, graphics, stats, BiocParallel
SummarizedExperiment, dplyr, tibble, tidyr, ggplot2, plotly,
magrittr, rlang, purrr, lifecycle, methods, utils, S4Vectors,
tidyselect, ellipsis, pillar, stringr, cli, fansi
dplyr, tidyr, tibble, purrr, magrittr, ggplot2, stringr,
ggrepel, propr, lmtest, plyr
GenomeInfoDb, GenomicAlignments, GenomicFeatures, Gviz,
Rsamtools, S4Vectors, rtracklayer, BiocGenerics, scales, tools,
IRanges, AnnotationDbi, grImport, htmlwidgets, plotrix,
Rgraphviz, InteractionSet, graph, utils, rhdf5
stats, utils, tidyr, dplyr, magrittr, data.table, ggiraph,
ggplot2, hopach, ape, ggtree, patchwork, SingleCellExperiment
methods, circular, ggplot2, AnnotationDbi, scater,
GenomicRanges, IRanges, S4Vectors, scattermore, dplyr,
RColorBrewer, grDevices, stats, SummarizedExperiment, utils
tm, text2vec, tokenizers, textstem, stopwords, data.table,
purrr, DiagrammeR, stats
SummarizedExperiment, tximport, jsonlite, S4Vectors, IRanges,
GenomicRanges, AnnotationDbi, GenomicFeatures, ensembldb,
BiocFileCache, AnnotationHub, Biostrings, tibble, GenomeInfoDb,
tools, utils, methods, Matrix
methods, stats, utils, MASS, ggplot2, yaml, IRanges, Rcpp,
Biostrings, BiocGenerics, S4Vectors, rlang, grid
igraph, methods, plyr, ggplot2, ggnewscale, scico,
RColorBrewer, tm, ggwordcloud, GSEABase, reshape2, grDevices,
ggforce, msigdb, Matrix, ggrepel, textstem
wordcloud, csaw, gplots, stats, utils, caTools, graphics,
DESeq2, Biobase
Rcpp (>= 1.0.1), arm (>= 1.10-1), eva, BiocFileCache,
BiocParallel, SingleCellExperiment, parallel, methods, stats
dplyr, igraph, logger, methods, magrittr, Matrix, OmnipathR(>=
2.99.8), progress, purrr, rlang, RCurl, stats, tibble, tidyr
mzR (>= 2.25.3), methods, Biobase, BiocGenerics, ProtGenerics
(>= 1.23.7), lattice, RColorBrewer, plyr, RANN, MassSpecWavelet
(>= 1.5.2), S4Vectors, robustbase, IRanges,
SummarizedExperiment, MsCoreUtils
Rfast, BiocParallel, GenomicRanges, IRanges, S4Vectors,
SummarizedExperiment, multtest
AnVIL, httr, jsonlite, rmarkdown, yaml, readr, whisker, tools,
utils, stats
SingleCellExperiment, SummarizedExperiment, S4Vectors, gplots,
grDevices, methods, stats, utils
tidyr, matrixStats, stats, ggplot2, methods, rtracklayer,
S4Vectors, ggforce
ExperimentHub, AnnotationHub, markdown, rmarkdown, EBImage,
magick, magrittr, filesstrings, animation, einsum
BiocFileCache, GEOquery, graph, methods, utils
data.table, lsa, methods, S4Vectors, utils, BiocFileCache,
shiny
BiocGenerics, BiocParallel, BSgenome, data.table,
DelayedArray, DelayedMatrixStats, formula.tools, GenomeInfoDb,
GenomicAlignments, GenomicRanges (>= 1.37.16), ggplot2 (>=
2.2.0), gtools, IRanges (>= 2.18.0), KernSmooth, memoise, plyr,
Rsamtools, reshape2, rtracklayer, S4Vectors (>= 0.27.5), som,
stringdist, stringi, SummarizedExperiment, utils, vegan, VGAM
dplyr, ggplot2, glue, tidyr, igraph, networkD3, visNetwork,
ggcorrplot, purrr, ggraph, stats, utils, maftools, assertthat,
tidygraph, expm, Matrix
parallel, data.table, seqinr, S4Vectors (>= 0.9.25), IRanges,
BSgenome, hash, methods,reticulate,rhdf5,XVector, DelayedArray,
GenomeInfoDb, GenomicRanges, dplyr, keras, mltools
circlize, ComplexHeatmap, clusterProfiler, DESeq2, dplyr,
GenomicTools, GenomicTools.fileHandler, GGally, ggnetwork,
ggplot2, ggpubr, ggrepel, graphics, grid, igraph, Matrix,
network, Rcpp, RCy3, stats, SummarizedExperiment, S4Vectors,
utils
methods, stats, Rcpp (>= 1.0.5), data.table (>= 1.12.6), plyr,
ggplot2, stringr, magrittr, ShortRead (>= 1.48.0), Biostrings
(>= 2.58.0), egg, Ckmeans.1d.dp, utils, S4Vectors
DelayedMatrixStats, DelayedArray, HDF5Array, S4Vectors,
methods, SingleCellExperiment, SummarizedExperiment, ggplot2,
rlang, grDevices, patchwork, reshape2, BiocParallel, stats
rjson, graphics, stats, RCurl, DBI, digest, BiocGenerics, Rcpp
(>= 0.11.0), ggplot2,grid,gridExtra,
png,base64enc,DT,rsvg,jsonlite,stringi
locfit, grid, utils, plyr, MultiAssayExperiment (>= 1.6.0)
BiocManager, rmarkdown, GenomeInfoDb, S4Vectors,
AnnotationDbi, graphics, stats, utils, methods, magrittr,
ggplot2, TxDb.Mmusculus.UCSC.mm9.knownGene
circlize (>= 0.4.5), GetoptLong, colorspace, clue,
RColorBrewer, GlobalOptions (>= 0.1.0), png, digest, IRanges,
matrixStats, foreach, doParallel
Biobase, S4Vectors, MultiAssayExperiment, MatrixGenerics,
piano, BiocParallel, BumpyMatrix, checkmate, methods, stats,
utils, graphics, grDevices, lsa, data.table, crayon, glue,
rlang
CytoGLMM, diffcyt, DT, dplyr, ggplot2, magrittr, methods,
rlang, stats, shiny, shinyFeedback, shinyjs, shinyMatrix,
SummarizedExperiment, tibble, tidyr
cytolib(>= 2.3.10), flowCore (>= 1.99.10), flowWorkspace (>=
4.1.8), openCyto (>= 1.99.2), XML, data.table, jsonlite, RBGL,
Rgraphviz, Biobase, methods, graph, graphics, utils, base64enc,
plyr, dplyr, grDevices, ggcyto (>= 1.11.4), yaml,
lattice, stats, corpcor, RUnit, tibble, RcppParallel, xml2
Biobase, MSnbase, tibble, RColorBrewer, stats, preprocessCore,
Cairo, png, lattice, reshape2, gplots, pcaMethods, ggplot2,
limma, knitr, tmvtnorm, norm, impute, stringr, grDevices,
graphics, openxlsx, utils, cp4p (>= 0.3.5), scales, Matrix,
vioplot, imp4p (>= 1.1), forcats, methods, DAPARdata (>=
1.24.0), siggenes, graph, lme4, readxl, highcharter,
clusterProfiler, dplyr, tidyr, AnnotationDbi, tidyverse, vsn,
FactoMineR, factoextra, multcomp, purrr, visNetwork, foreach,
parallel, doParallel, igraph, dendextend, Mfuzz, apcluster,
diptest, cluster
Biobase, GEOquery, impute, limma, pheatmap, plyr, scales,
snpStats, sva, swamp, stats, methods, utils, bnstruct
ExperimentHub, bsseq, GenomeInfoDb, limma, edgeR, DSS, minfi,
missMethyl, GenomicRanges, plyr, Gviz, IRanges, stats, utils,
S4Vectors, methods, graphics, SummarizedExperiment
tensorflow, CatEncoders, matlab, rcdk, stringdist, tokenizers,
webchem, purrr, ttgsea, PRROC, reticulate, stats
methods, utils, DelayedArray, HDF5Array, BiocSingular,
rTensor, DelayedRandomArray, irlba, Matrix, einsum,
BiocParallel, BiocSingular, SummarizedExperiment,
SingleCellExperiment, S4Vectors, Matrix, Seurat, matrixStats,
parallel, scran, grDevices, stats, methods
utils, stats, methods, Matrix, Rcpp, BiocGenerics, S4Vectors,
IRanges, GenomicRanges, SummarizedExperiment, BiocParallel,
DelayedArray, DelayedMatrixStats, HDF5Array, rhdf5, edgeR,
R.utils, dqrng, beachmat, scuttle
PADOG (>= 1.6.0), GSVA (>= 1.12.0), globaltest (>= 5.18.0),
limma (>= 3.20.9), edgeR (>= 3.6.8), HTMLUtils (>= 0.1.5),
hwriter (>= 1.2.2), gplots (>= 2.14.2), ggplot2 (>= 1.0.0),
safe (>= 3.4.0), stringi (>= 0.5.0), parallel, stats, metap,
grDevices, graphics, utils, org.Hs.eg.db, org.Mm.eg.db,
org.Rn.eg.db, RColorBrewer, methods, EGSEAdata (>= 1.3.1),
htmlwidgets, plotly, DT
basilisk, reticulate, SingleCellExperiment,
SummarizedExperiment, Rsamtools, utils, zlibbioc, scater,
dplyr, tidyr, magrittr, S4Vectors, scuttle, stats
withr, BiocGenerics, GenomeInfoDb, rtracklayer, S4Vectors,
GenomicFeatures, dplyr, rlang, patchwork, ggplot2,
BiocParallel, qvalue, stringr, utils, stats, ggrepel, tibble,
tidyr, SummarizedExperiment, MultiAssayExperiment, IRanges,
progress, purrr, glmnet, methods
Biobase, BiocGenerics, BiocParallel, GWASTools, gdsfmt,
GenomicRanges, IRanges, S4Vectors, SeqArray, SeqVarTools,
SNPRelate, data.table, graphics, grDevices, igraph, Matrix,
methods, reshape2, stats, utils
DT, htmltools, factoextra, heatmaply, maptools, pheatmap,
scales, shinyHeatmaply, shinybusy, ggplot2, stringr, umap,
GEOquery, impute, grDevices, stats, graphics, utils
httr, readr (>= 1.3.1), xml2, dplyr, data.table, tidyr,
magrittr, R.utils, limma
AnnotationDbi, backbone, bs4Dash (>= 2.0.0), circlize,
colorspace, colourpicker, ComplexHeatmap, dendextend, DESeq2,
dplyr, DT, dynamicTreeCut, expm, ggforce, ggplot2, ggrepel,
GO.db, graphics, grDevices, grid, igraph, matrixStats, methods,
plotly, RColorBrewer, rintrojs, rlang, rmarkdown, S4Vectors,
scales, shiny, shinyAce, shinycssloaders, shinyWidgets, stats,
SummarizedExperiment, tidyr, tippy, tools, utils, viridis,
visNetwork
data.table, ggplot2, reshape2, methods, utils, Biostrings,
plyr, dplyr, GenomeInfoDb
GenomicFeatures, GenomeInfoDb, rtracklayer, bumphunter,
derfinder (>= 1.21.7), AnnotationDbi, IRanges, org.Hs.eg.db,
utils, methods
Matrix, robust, plyr, lme4, Rcpp (>= 1.0.4.6), withr, methods,
graphics, stats, testthat, GeomxTools, NanoStringNCTools
BiocGenerics, rjson, readxl, EnvStats, reshape2, methods,
utils, stats, data.table, outliers, lmerTest, dplyr
AnnotationHub, ExperimentHub, S4Vectors, assertthat, dplyr,
kableExtra, knitr, magrittr, methods, readr, stringr, tibble,
utils
dplyr (>= 1.0.6), httr (>= 1.4.2), readr, tidyr, tibble,
utils, stringr, magrittr, caret, corrplot, ggplot2, pROC,
PRROC, igraph, graphics, stats, purrr, grDevices, protr
utils, dplyr, readr, tidyr, purrr, rlang, tibble,
BiocParallel, stringr, fs, lubridate, lifecycle, ggplot2,
ggrepel, stats, psych, data.table, readxl, tools, Rcapture,
grDevices, zip
config, golem, shiny, DT, shinydashboard, shinyFiles,
shinycssloaders, data.table, fs, dplyr, tidyr, circlize,
colourpicker, dendextend, factoextra, ggplot2, plotly, plyr,
shinyFeedback, shinyalert, tibble, umap, visNetwork,
wordcloud2, readxl, htmlwidgets, colorspace, signal, scales,
htmltools, ComplexHeatmap, grDevices, stats, tools, utils,
biomaRt, rlang, fmsb, igraph
ComplexHeatmap (>= 2.7.10), grDevices, stats, shiny, grid,
GetoptLong, S4Vectors (>= 0.26.1), digest, IRanges, kableExtra
(>= 1.3.1), utils, svglite, htmltools, clisymbols, jsonlite,
RColorBrewer, fontawesome
caret, parallel, doParallel, foreach, e1071, future.apply,
future, missForest, pcaMethods, tidyverse, stats, utils,
methods, SummarizedExperiment, S4Vectors
stats, graphics, utils, limma (>= 3.30.13),
SummarizedExperiment (>= 1.10.0), preprocessCore (>= 1.36.0),
BiocFileCache, rappdirs, xml2, RCurl, ggplot2, PairedData,
rmarkdown
testthat, VennDiagram, pamr, methods, DESeq2, edgeR, limma,
Biobase, SummarizedExperiment, plyr, foreach, utils, sSeq,
xtable
ggplot2, readr, magrittr, dplyr, purrr, reshape2, gridExtra,
utils, stringr, ggpubr, stats, cowplot, RColorBrewer, ggridges,
tidyr, scales, grid, rlang, ggforce, grDevices, gtable, plyr,
knitr, rmarkdown, ggrepel, gghalves, tools
dplyr, gridExtra, stringr, ggplot2, grDevices, MSstats,
MSstatsConvert, data.table, Biostrings, MSstatsPTM, Rcpp,
checkmate, factoextra, ggpubr, purrr, tibble, tidyr, tidyverse,
scales, stats
robustbase, biglm, pcaPP, edgeR, metagenomeSeq, lpsymphony,
pbapply, car, dplyr, vegan, chemometrics, ggplot2, pheatmap,
logging, data.table, lmerTest, hash, optparse, grDevices,
stats, utils, glmmTMB, MASS, cplm, pscl, lme4
clusterProfiler (>= 4.0.2), config, DT, enrichplot, golem,
magrittr, shiny (>= 1.6.0), shinyWidgets, shinycustomloader,
htmltools, ggplot2, graphics, utils
ape, tidyr, ggplot2, magrittr, dplyr, Biostrings, ggrepel,
vegan, zoo, ggtree, tidytree (>= 0.3.5), MASS, methods, rlang,
tibble, grDevices, stats, utils, coin, ggsignif, patchwork,
ggstar, tidyselect, SummarizedExperiment, foreach, treeio (>=
1.17.2), pillar, dtplyr, ggtreeExtra
MsCoreUtils, S4Vectors, IRanges, rawrr (>= 1.1.14), utils,
BiocParallel
Matrix, ggplot2, MultiAssayExperiment, ropls, graphics,
methods, plotrix
magrittr, data.table, utils, R.utils, dplyr, stats,
GenomicRanges, GenomeInfoDb, BSgenome, Biostrings,
VariantAnnotation, stringr, googleAuthR, httr, jsonlite,
methods, parallel, rtracklayer, RCurl
cpp11 (>= 0.2.5), readr, S4Vectors, SummarizedExperiment,
BiocSingular, bsseq, forcats, assertthat, AnnotationDbi, Rcpp,
dplyr, data.table, e1071, fs, GenomicRanges, ggthemes, glue,
limma (>= 3.44.0), patchwork, purrr, rlang, RSQLite, Rsamtools,
scales, scico, stats, stringr, tibble, tidyr, utils, withr,
zlibbioc
fgsea, limma, methods, reshape, stats, utils
methods, stats, utils, tools, parallel, magrittr, Rcpp (>=
1.0.5), data.table, fst, ggplot2, AnnotationHub, BiocFileCache,
BiocGenerics, BiocParallel, Biostrings, BSgenome, DelayedArray,
DelayedMatrixStats, genefilter, GenomeInfoDb, GenomicRanges,
HDF5Array, IRanges, plotly, R.utils, rhdf5, rtracklayer,
SummarizedExperiment, S4Vectors
BiocGenerics, BiocFileCache, dasper, derfinder, dplyr,
IRanges, GenomeInfoDb, GenomicRanges, ggplot2, ggpubr, ggrepel,
magrittr, rtracklayer, S4Vectors, stringr, data.table,
megadepth, methods, plyr, purrr, tibble, utils
checkmate, crayon, curl, digest, dplyr, httr, igraph,
jsonlite, later, logger, magrittr, progress, purrr, rappdirs,
readr(>= 2.0.0), readxl, rlang, stats, stringr, tibble, tidyr,
tidyselect, tools, utils, xml2, yaml
BiocGenerics, Biobase, S4Vectors, SummarizedExperiment,
MultiAssayExperiment, BiocParallel, ggplot2, magicaxis,
RColorBrewer, parallel, caTools, methods, downloader, stats,
utils, graphics, grDevices, reshape2, jsonlite, data.table,
glue, checkmate
ape, bioDist, BiocStyle, Biostrings, colourpicker, data.table,
DT, energy, ExperimentHub, ggplot2, gridExtra, pbapply,
RColorBrewer, RCurl, shiny, shinyBS, shinyFiles, shinyjs,
OmaDB, plyr, xml2, zoo, yaml
bnlearn (>= 4.7), C50 (>= 0.1.2), MASS, matrixStats, partykit,
Rgraphviz, WGCNA, GO.db, impute, preprocessCore, grDevices,
graphics, stats, utils, parallel, pheatmap (>= 1.0.8), dplyr,
gdata, clusterProfiler, ReactomePA, ggplot2, openxlsx, DBI
DAPAR (>= 1.26.1), DAPARdata (>= 1.24.0), rhandsontable,
data.table, shinyjs, DT, shiny, shinyBS, shinyAce, highcharter,
htmlwidgets, webshot, R.utils, shinythemes, XML,later,
rclipboard, shinycssloaders, future, promises, colourpicker,
BiocManager, shinyjqui,shinyTree, shinyWidgets, sass, tibble
GenomicRanges (>= 1.20.3), IRanges (>= 2.2.1), RColorBrewer,
S4Vectors, data.table, grDevices, graphics, stats, utils,
SummarizedExperiment, GenomeInfoDb, GenomicFeatures, Rsamtools,
Biobase, Biostrings, BiocGenerics, rtracklayer, ggplot2,
gridExtra, futile.logger, VGAM, tools, methods, mclust, rhdf5,
Matrix
graphics, methods, stats, utils, Biobase (>= 2.18.0), CGHbase
(>= 1.18.0), CGHcall (>= 2.18.0), DNAcopy (>= 1.32.0),
GenomicRanges (>= 1.20), IRanges (>= 2.2), matrixStats (>=
0.60.0), R.utils (>= 2.9.0), Rsamtools (>= 1.20), future.apply
(>= 1.8.1)
methods, stats, utils, S4Vectors, IRanges,
SummarizedExperiment, BiocGenerics, ProtGenerics (>= 1.19.3),
AnnotationFilter, lazyeval, Biobase, MsCoreUtils (>= 1.1.2),
igraph, plotly
methods, grDevices, graphics, utils, stats, tools,
BiocGenerics, S4Vectors, IRanges, Biobase, Biostrings,
BSgenome, Rsamtools, GenomicFeatures, ShortRead, BiocParallel,
GenomeInfoDb, rtracklayer, GenomicFiles, AnnotationDbi
httr, methods, RJSONIO, XML, utils, BiocGenerics, stats,
graph, fs, uuid, uchardet, glue, RCurl, base64url, base64enc,
IRkernel, IRdisplay, RColorBrewer
dplyr, ggplot2, RColorBrewer, grid, regioneR, valr,
caretEnsemble, GenomicFeatures, rtracklayer, GenomicRanges,
GenomeInfoDb, ComplexHeatmap, AnnotationHub, VennDiagram,
callr, circlize, ggplotify, ggprism, methods, stats, RLHub,
aws.s3, pheatmap
jsonlite, httr, progress, ggplot2, methods, gplots,
RColorBrewer, dplyr, tidyr
BiocGenerics, BiocParallel, Biostrings, data.table, dplyr,
GenomeInfoDb, GenomicFeatures, GenomicRanges, ggplot2, IRanges,
plotly, rlang
BiocGenerics, S4Vectors, IRanges, utils, SummarizedExperiment,
SingleCellExperiment, DelayedMatrixStats
grDevices, stats, utils, graphics, SeuratObject, Biobase,
GeomxTools, repmis, methods, Matrix
httr, igraph, utils, stats, miRNAtap, miRNAtap.db,
AnnotationDbi, org.Hs.eg.db, ggplot2, gridExtra, gplots,
grDevices, lattice, latticeExtra, TCGAbiolinks, gdata,
MAGeCKFlute
methods, dplyr, magrittr, miniUI, shiny, Rsamtools, GSEABase,
rjson, BiocFileCache, DT, httr, readxl, AnnotationDbi,
org.Hs.eg.db, utils
stats, methods, SummarizedExperiment, corpcor, doParallel,
parallel, ggplot2, tidyr, GGally
utils, rtracklayer, Matrix, matrixStats, stats, methods,
graphics, GenomicRanges, GenomicFeatures, IRanges, Rsamtools,
AnnotationDbi
ExperimentHub, SingleCellExperiment, HDF5Array,
SummarizedExperiment, gdata, AnnotationHub
ggplot2, ggpubr, methods, mzID, mzR, stats
SingleCellExperiment, SummarizedExperiment, tensorflow,
scater, gradDescent, CatEncoders, DeepPINCS, purrr, DiagrammeR,
stats
GDSArray (>= 1.11.1), DelayedDataFrame (>= 1.6.0), tools,
utils, stats, methods, gdsfmt, SNPRelate, SeqArray,
SeqVarTools, DelayedArray, Biostrings, IRanges
limSolve, SomaticSignatures, VariantAnnotation, GenomeInfoDb,
reshape2, gridExtra, corrplot, dendextend, GetoptLong,
circlize, gtrellis, doParallel, PMCMRplus, ggbeeswarm,
ComplexHeatmap, KEGGREST, grDevices, Biostrings,
BSgenome.Hsapiens.UCSC.hg19, magrittr, pracma, dplyr, utils
assertthat, shiny, shinyjs, DESeq2, caret, plotly, ggplot2,
rentrez, reshape2, covr, ape, vegan, dplyr, magrittr,
MultiAssayExperiment, SummarizedExperiment, S4Vectors (>=
0.23.19), XML, forcats, scales, lattice, glmnet, tsne, plotROC,
DT, utils, limma, methods, stats, tibble, biomformat, umap,
Matrix, GUniFrac
methods, stats, Matrix, BiocGenerics, BiocParallel, S4Vectors,
IRanges, GenomicRanges, GenomicAlignments, Rsamtools,
GenomeInfoDb, SQUAREM, sparseMatrixStats
BiocGenerics, BiocParallel, data.table, dplyr, tidyr,
GenomeInfoDb, GenomicAlignments, GenomicFeatures,
GenomicRanges, stats, Rsamtools, methods, Rcpp, xgboost
stats, stats4, utils, methods, phyloseq, BiocParallel,
zinbwave, edgeR, DESeq2, limma, ALDEx2, corncob,
SummarizedExperiment, MAST, Seurat, metagenomeSeq, MGLM,
ggplot2, RColorBrewer, plyr, ffpe, reshape2, ggdendro,
graphics, cowplot
stats, utils, GEOquery, graphics, BiocGenerics, illuminaio
BiocFileCache, R6, RCurl, RSQLite, Rcpp, XML, chk, jsonlite,
lgr, lifecycle, methods, openssl, plyr, progress, rappdirs,
stats, stringr, tools, withr, yaml
stats, methods, dplyr, tibble, ggplot2, ggsci, superheat,
assertthat, drtmle (>= 1.0.4), S4Vectors, BiocGenerics,
BiocParallel, SummarizedExperiment, limma
AnnotationDbi, AnnotationHub, binr, cowplot, data.table,
dplyr, DT, fastmatch, fgsea, ggplot2, ggrepel, graphics,
highcharter, htmltools, httr, limma, methods, parallel,
pbapply, purrr, qs, R.utils, readxl, reshape2, rhdf5, rlang,
scales, shiny (>= 1.7.0), shinycssloaders, stats, tibble,
tools, utils
ggplot2, ggbio, ggtext, GenomeInfoDb, GenomicRanges, IRanges,
reshape2, methods, BioNERO
utils, DT, htmltools, vroom, plyr, dplyr, magrittr, jsonlite,
rapportools, basilisk, reticulate, shinyBS, shinycssloaders,
rintrojs, markdown
dplyr, rtracklayer, GenomicRanges, ggplot2, BSgenome,
Biostrings, utils
org.Hs.eg.db, org.Mm.eg.db, dbscan, fpc, factoextra, Biobase,
BiocFileCache, parallel, doParallel, foreach,
SummarizedExperiment, biomaRt, AnnotationDbi, methods, dplyr,
scran, scater, pheatmap, ggplot2, gridExtra,
SingleCellExperiment, stats, utils, scales, grDevices,
graphics, Rtsne, GEOquery, clusterProfiler, stringr, tools,
rlang, DT
AnnotationDbi, biomaRt, CARNIVAL, dorothea, dplyr, ggplot2,
GSEABase, igraph, magrittr, org.Hs.eg.db, plyr, purrr, readr,
rlang, scales, stringr, tibble, utils, visNetwork
WGCNA, glue, RhpcBLASctl, matrixStats, Rcpp
Biobase, BiocGenerics, graphics, grDevices, igraph, Matrix,
methods, utils, sincell, TSCAN
AnnotationHub, ExperimentHub, S4Vectors, dplyr, magrittr, mia,
purrr, rlang, stringr, tibble, tidyr, tidyselect
AnnotationHub, ExperimentHub, MultiAssayExperiment, rlang,
stats
Biobase, flowCore, flowDensity, flowClust, cytometree,
ggplot2, GGally, graphics, grDevices, methods, mrfDepth, stats,
utils
Rcpp, SummarizedExperiment, utils, methods, ComplexHeatmap,
circlize, ashr, data.table, BiocParallel, dplyr, stats,
magrittr, rlang, S4Vectors
zoo, ggplot2, purrr, reshape2, parallel, IRanges, S4Vectors,
rlang, grDevices, stats, utils
basilisk, BiocFileCache, BiocParallel, data.table, dplyr,
GenomeInfoDb, GenomicFeatures, GenomicRanges, ggplot2, ggpubr,
ggrepel, grid, IRanges, magrittr, megadepth, methods,
plyranges, readr, reticulate, rtracklayer, S4Vectors, stringr,
SummarizedExperiment, tidyr
ggplot2, KernSmooth, matrixStats, methods, patchwork,
parallel, pbapply, stats, statmod, survey, viridisLite
broom, dplyr, magrittr, Matrix, purrr, rlang, stats, stringr,
tibble, tidyr, tidyselect, withr
IRanges, GenomicRanges, SummarizedExperiment, ggplot2, DESeq2,
tictoc
methods, graphics, grDevices, grid, utils, stats, Matrix, Rcpp
(>= 0.10.3), RcppEigen, RSpectra (>= 0.14-0), irlba,
pcaMethods, Biobase, BiocGenerics, SummarizedExperiment,
SingleCellExperiment, ggplot2, ggplot.multistats, tidyr,
tidyselect, ggthemes, VIM, knn.covertree, proxy, RcppHNSW,
smoother, scales, scatterplot3d
progeny, easierData, dorothea (>= 1.0.0), quantiseqr, ROCR,
grDevices, stats, graphics, ggplot2, grid, DESeq2, utils,
dplyr, matrixStats, rlang, arules, BiocParallel, reshape2,
rstatix, ggrepel, coin
BiocGenerics, Biostrings, BSgenome, BiocParallel,
BiocFileCache, GenomeInfoDb, GenomicRanges, httr, IRanges,
jsonlite, motifmatchr, Matrix, rtracklayer, Rcpp, S4Vectors,
stats, utils
aplot, DOSE (>= 3.16.0), ggplot2, ggraph, graphics, grid,
igraph, methods, plyr, purrr, RColorBrewer, reshape2, stats,
utils, scatterpie, shadowtext, GOSemSim, magrittr, ggtree,
yulab.utils (>= 0.0.4)
stats, methods, utils, GenomicRanges, BiocGenerics,
GenomeInfoDb, SummarizedExperiment, VariantAnnotation, stringi,
data.table
GenomicRanges, BiocGenerics, S4Vectors, IRanges, viridisLite,
graphics, plotrix, grDevices, stats
stats, plyr, VariantAnnotation, SummarizedExperiment,
rtracklayer, GenomicRanges, methods, IRanges, foreach,
doParallel, parallel
graphics, stats, utils, methods, abind, gtools, qvalue,
S4Vectors, SummarizedExperiment, matrixStats, svMisc, Rcpp,
Matrix, SingleCellExperiment, jsonlite
Biobase, limma, RobustRankAggreg, ggplot2,
SummarizedExperiment, grid, rmarkdown, grDevices, graphics,
methods, ComplexHeatmap, stats, utils, parallel
Biostrings, ggplot2, magrittr, tidyr, utils, stats, aplot,
RColorBrewer, ggalt, ggforce, dplyr, R4RNA, grDevices,
seqmagick, grid, methods
SpatialExperiment, SingleCellExperiment, SummarizedExperiment,
ggside, grid, methods, stats
ape, aplot (>= 0.0.4), dplyr, ggplot2 (>= 3.0.0), grid,
magrittr, methods, purrr, rlang, ggfun, yulab.utils, tidyr,
tidytree (>= 0.2.6), treeio (>= 1.8.0), utils, scales
AnnotationDbi, checkmate, graph (>= 1.67.1), httr, rappdirs,
stats, utils, graphics
httr, jsonlite, dplyr, tibble, tidyr, readr, BiocFileCache,
tools, utils, digest
Rcpp (>= 1.0.5), matrixStats, ggpubr, ggplot2, survminer,
stats
DESeq2, SummarizedExperiment, GenomicRanges, IRanges,
S4Vectors, ggplot2 (>= 2.0.0), heatmaply, plotly, pheatmap,
pcaExplorer, IHW, gplots, UpSetR, goseq, stringr, dplyr, limma,
GOstats, GO.db, AnnotationDbi, shiny (>= 0.12.0),
shinydashboard, shinyBS, DT, rentrez, rintrojs, rlang, ggrepel,
knitr, rmarkdown, shinyAce, BiocParallel, grDevices, base64enc,
methods
dplyr (>= 0.7.6), futile.logger (>= 1.4.3), GenomeInfoDb (>=
1.14.0), GenomicRanges (>= 1.30), ggplot2 (>= 3.1.1),
grDevices, grid, idr (>= 1.2), IRanges (>= 2.18.0), magrittr
(>= 1.5), methods, reticulate (>= 1.13), scales (>= 1.0.0),
stats, stringr (>= 1.3.1), utils
S4Vectors, stats, utils, SummarizedExperiment, methods,
pheatmap, scuttle, stringr, readr, EBImage, cytomapper, abind,
BiocParallel, viridis, dplyr, magrittr, DT, igraph,
SingleCellExperiment, vroom, BiocNeighbors, RTriangle, ggraph,
tidygraph, ggplot2, data.table, sf, concaveman
dplyr, rtracklayer, BSgenome, Biostrings, utils, methods,
IRanges, ExperimentHub
AnnotationDbi, DOSE, enrichplot, GOSemSim, methods, utils,
AnnotationHub, MeSHDbi, yulab.utils
markdown, rmarkdown, BiocStyle, knitr, methods, stats, utils,
fdrtool, MeSHDbi, Category, S4Vectors, BiocGenerics, RSQLite
Rcpp (>= 1.0.6), ExperimentHub, dplyr, impute,
PerformanceAnalytics, Biobase, ggpmisc, tidyverse, ggplot2,
ggpubr, minfi, tibble, RPMM, stats, graphics, tidyr,
preprocessCore, dynamicTreeCut
BiocGenerics, S4Vectors, IRanges, GenomeInfoDb, GenomicRanges,
SummarizedExperiment, Biobase, graphics, lattice, annotate,
genefilter, AnnotationDbi, minfi, stats4, illuminaio,
GenomicFeatures
dplyr, phyloseq, magrittr, purrr, MASS, utils, ggplot2,
tibble, rlang, stats, coin, ggtree, tidytree, methods, IRanges,
tidyr, patchwork, ggsignif, metagenomeSeq, DESeq2, edgeR,
BiocGenerics, Biostrings, yaml, biomformat, S4Vectors, Biobase,
ComplexHeatmap, ANCOMBC, caret, limma, ALDEx2, multtest,
plotROC
reshape2, GenomicRanges, pheatmap, deepSNV, grDevices,
graphics, stats, utils, S4Vectors, Rhtslib, parallel, methods,
ggplot2
methods, stats, utils, grDevices, graphics, BiocGenerics,
GenomicRanges, TFBSTools, Biostrings, IRanges, stabs, BSgenome,
glmnet, S4Vectors, SummarizedExperiment, BiocParallel, grid,
circlize, ComplexHeatmap (>= 2.0.0), XVector, GenomeInfoDb,
tools, vioplot
Rcpp, BH, xml2, methods, igraph, fabia, RcppParallel, biclust,
isa2, QUBIC, akmbiclust, RColorBrewer
softImpute, methods, stats, graphics, pdist, reticulate,
scran, data.table, FNN, matrixStats, limma, mvtnorm, tidyr,
dplyr
ExperimentHub, utils, GSEABase, org.Mm.eg.db, org.Hs.eg.db,
AnnotationDbi, methods, stats, AnnotationHub
SummarizedExperiment, VariantAnnotation, cowplot, Biostrings,
base, methods, magrittr, tibble, tidyr, gtools, gridExtra,
MCMCprecision, MASS, matrixTests, data.table, dplyr, rlang,
BSgenome, GenomeInfoDb, GenomicFeatures, GenomicRanges,
IRanges, S4Vectors, uwot, ggplot2, stringr,
TxDb.Hsapiens.UCSC.hg19.knownGene,
TxDb.Hsapiens.UCSC.hg38.knownGene, BSgenome.Hsapiens.UCSC.hg19,
BSgenome.Hsapiens.UCSC.hg38, BSgenome.Mmusculus.UCSC.mm9,
BSgenome.Mmusculus.UCSC.mm10, deconstructSigs, decompTumor2Sig,
topicmodels, ggrepel, withr, plotly, utils, factoextra,
cluster, ComplexHeatmap, philentropy, shinydashboard, sortable,
maftools, shiny, shinyjs, shinyalert, shinybusy, shinyBS,
TCGAbiolinks, shinyjqui, stringi
hash(>= 2.2.6), openxlsx(>= 4.0.17), rentrez(>= 1.1.0), stats,
rlang, stringr, knitr, testthat, utils, AnnotationDbi, httr,
GenomicRanges, tidyverse, VarfromPDB, org.Hs.eg.db, curl,
dplyr, XML, XML2R
ROCR,pracma,ggplot2,glmnet,igraph,reshape2,
parallel,stats,utils,MultiAssayExperiment,graphics,grDevices,
methods,BiocFileCache,GenomicRanges,
bigmemory,doParallel,foreach,
combinat,rappdirs,GenomeInfoDb,S4Vectors,
IRanges,RColorBrewer,Rtsne,httr,plotrix
dplyr, ggplot2, igraph, magrittr, minet, purrr, tibble, tidyr,
AnnotationDbi, GO.db, RandomWalkRestartMH, gprofiler2, methods,
stats
stats, IRanges, GenomicRanges, GenomeInfoDb, methods, rlang,
S4Vectors, scales, InteractionSet, ggplot2, grDevices,
plyranges, ks, speedglm, data.table, progress, ggridges
Biobase, S4Vectors, methods, AnnotationDbi, stats, utils,
BiocFileCache, shiny, graph, Rgraphviz, ontologyPlot, dplyr,
magrittr, DT, igraph, AnnotationHub
limma, stats, reshape, ggplot2, grDevices, RColorBrewer,
pheatmap, knitr, methods, devtools, parallelDist,
dplyr, methods, stats, utils, Matrix, jsonlite, homologene,
gprofiler2, babelgene, data.table, parallel, ggplot2, ggpubr,
patchwork, DelayedArray, DelayedMatrixStats, Matrix.utils, grr,
repmis, GenomeInfoDbData, tools
utils, httr, igraph, plyr, rjson, R.utils, jsonlite, readr,
rappdirs
SingleCellExperiment, RColorBrewer, igraph, transport, pracma,
cluster, Rtsne, destiny, RANN, ggplot2, maptree, pheatmap,
scatterplot3d, VGAM, methods, grDevices, graphics, stats,
utils, cowplot, S4Vectors, BiocGenerics, SummarizedExperiment,
Biobase, phateR, reticulate
ape, phangorn, tidyr, ggplot2, ggtree, methods
BSgenome, digest, visNetwork, magrittr, methods, Biostrings,
GenomeInfoDb, parallel, stats, utils, rmarkdown
curl, data.table, dplyr, grDevices, grid, ggplotify, IRanges,
methods, plyranges, purrr, Rcpp, RColorBrewer, rlang, stats,
strawr, tools, utils
S4Vectors, IRanges, GenomicRanges, randomForest, ModelMetrics,
e1071, PRROC, pROC, caret, utils, cluster, dbscan, doSNOW,
foreach, pbapply, stats, parallel, gtools, rCGH
AnnotationDbi, BiocParallel, data.table, dplyr, DESeq2,
IRanges, GenomicRanges, GenomicFeatures, GenomicAlignments,
GenomeInfoDb, ggplot2, gplots, graphics, methods, rlang,
scales, S4Vectors, SummarizedExperiment, stats, tibble
GenomicRanges, stats, soGGi, methods, utils, S4Vectors,
R.utils, dplyr, magrittr, tidyr, IRanges, rjson,
ChIPseeker,GenomicFeatures,TxDb.Hsapiens.UCSC.hg19.knownGene,TxDb.Hsapiens.UCSC.hg38.knownGene,TxDb.Mmusculus.UCSC.mm10.knownGene,
TxDb.Mmusculus.UCSC.mm9.knownGene,org.Hs.eg.db,org.Mm.eg.db,rGREAT,
pheatmap, ggplot2, EnrichedHeatmap, ComplexHeatmap, grid,
circlize, BiocParallel, rtracklayer, GenomeInfoDb, grDevices,
rlang, tiff, Rsamtools
SummarizedExperiment, utils, sva, stats, methods, graphics,
Hmisc
minfi, HDF5Array, rhdf5, S4Vectors, utils, methods, RCurl,
R.utils, BiocFileCache, IlluminaHumanMethylation450kmanifest
processx, BiocManager, rtracklayer, stats, tools, methods,
GenomicRanges, stringr
BiocFileCache, jsonlite, xml2, RCurl, curl, utils
dplyr, ggplot2, caret, ROCR, pROC, data.tree, methods, stats,
e1071, ape, kernlab, AnnotationHub, utils
S4Vectors, limma, ggraph, igraph, methods, cluster,
minpack.lm, mixtools, BiocParallel, proxy, proxyC, Matrix,
ggplot2, hopach, diptest, mgcv, stats, graphics, statmod, Cepo
igraph, Matrix, BiocGenerics, BiocParallel, BiocNeighbors,
BiocSingular, S4Vectors, SummarizedExperiment,
SingleCellExperiment, scran, scater, scuttle, bluster, methods,
DelayedArray, xgboost, stats, utils, MASS
randomForest, e1071, stats, SummarizedExperiment,
SingleCellExperiment, methods
stringdist, dplyr, reshape2, ggalluvial, stringr, vegan,
powerTCR, SummarizedExperiment, plyr, parallel, doParallel,
methods, utils, rlang, igraph, SeuratObject
Matrix, stats, methods, pscl, VGAM, dgof, BiocParallel, MASS,
emdbook, magrittr, utils
methods, RSQLite, igraph, S4Vectors, plotly, reactome.db,
AnnotationDbi, SummarizedExperiment, SingleCellExperiment,
nnTensor (>= 1.1.5), ccTensor (>= 1.0.2), rTensor (>= 1.4.8),
abind, plotrix, heatmaply, tagcloud, rmarkdown, BiocStyle,
knitr, AnnotationHub, MeSHDbi (>= 1.29.2), grDevices, graphics,
stats, utils, outliers, Category, meshr (>= 1.99.1), GOstats,
ReactomePA, DOSE, crayon, checkmate, BiocManager, visNetwork,
schex, ggplot2
data.table, S4Vectors, digest, Matrix, Rtsne, httr, igraph,
clustree, scran, sys, epivizrData, epivizrServer, ggraph,
scater, Seurat, SingleCellExperiment, ggplot2, stats, utils
AnnotationDbi, AnnotationFilter, AnnotationHub, BiocParallel,
Biostrings, data.table, digest, DT, ensembldb, fst,
GenomeInfoDb, GenomicFeatures, GenomicRanges, ggplot2,
htmlwidgets, IRanges, Matrix, methods, plotly, rintrojs,
rtracklayer, S4Vectors, scanMiR, scanMiRData, shiny,
shinycssloaders, shinydashboard, stats, utils, waiter
Biostrings, GenomicRanges, IRanges, data.table, BiocParallel,
methods, GenomeInfoDb, S4Vectors, ggplot2, stats, stringi,
utils, graphics, grid, gridExtra, seqLogo
stats, utils, methods, grid, gridExtra, Matrix, BiocGenerics,
S4Vectors, SummarizedExperiment, DelayedArray,
DelayedMatrixStats, beachmat, BiocNeighbors, BiocSingular,
BiocParallel, rlang, ggbeeswarm, viridis, Rtsne, RColorBrewer,
ggrepel
grid, ggplot2, plyr, spatstat.geom, stats, grDevices
ChIPseeker, GenomicRanges, SummarizedExperiment, IRanges,
S4Vectors, bamsignals, ComplexHeatmap, graphics, stats, utils,
methods, chromhmmData
BiocParallel, grDevices, utils, stringr, tibble, illuminaio,
MASS, GenomicRanges, IRanges, grid, preprocessCore, S4Vectors,
randomForest, wheatmap, ggplot2, graphics, KernSmooth,
parallel, matrixStats, DNAcopy, stats, SummarizedExperiment,
e1071, fgsea, ggrepel, reshape2
ExperimentHub, utils, affy, limma, Biobase, magrittr, dplyr,
R.utils, stats, rhdf5
AnnotationDbi, ggplot2, data.table, ExperimentHub, HDF5Array,
magrittr, RSQLite, dplyr, fgsea, scales, methods, qvalue,
stats, utils, reshape2, visNetwork, BiocParallel, fastmatch,
reactome.db, Matrix, clusterProfiler, readr, DOSE, rhdf5,
GSEABase, DelayedArray, BiocGenerics, tools
ape, batchelor, BiocParallel, celldex, colourpicker,
colorspace, cowplot, cluster, ComplexHeatmap, data.table,
DelayedMatrixStats, DESeq2, dplyr, DT, ExperimentHub, fields,
ggplot2, ggplotify, ggrepel, ggtree, gridExtra, GSVA (>=
1.26.0), GSVAdata, igraph, KernSmooth, limma, MAST, Matrix,
matrixStats, methods, msigdbr, multtest, plotly, RColorBrewer,
ROCR, Rtsne, S4Vectors, scater, scMerge (>= 1.2.0), scran,
Seurat (>= 3.1.3), shiny, shinyjs, SingleR, sva, reshape2,
AnnotationDbi, shinyalert, circlize, enrichR, celda,
shinycssloaders, DropletUtils, scds (>= 1.2.0), reticulate (>=
1.14), tools, tximport, fishpond, withr, GSEABase, R.utils,
zinbwave, scRNAseq (>= 2.0.2), TENxPBMCData, yaml, rmarkdown,
magrittr, scDblFinder, metap, VAM (>= 0.5.3), tibble, rlang,
stats
basilisk, reticulate, irlba, stats, assertthat
babelgene (>= 21.4), BiocGenerics, BiocParallel, BiocSet,
checkmate, circlize, ComplexHeatmap (>= 2.0), data.table (>=
1.10.4), DelayedMatrixStats, edgeR (>= 3.18.1), ggplot2 (>=
2.2.0), graphics, grDevices, GSEABase, irlba, limma, Matrix,
methods, plotly (>= 4.9.0), stats, utils, viridis
reticulate, basilisk, checkmate, stats, SpatialExperiment,
methods, SummarizedExperiment, Matrix, S4Vectors, ggplot2,
ggrepel, scales, gridExtra
av, BiocFileCache, data.table, DESeq2, distinct, edgeR, WGCNA,
flashClust, htmlwidgets, genefilter, ggplot2, ggdendro,
grImport, grid, gridExtra, gplots, igraph, HDF5Array, limma,
methods, magick, rsvg, shiny, dynamicTreeCut, grDevices,
graphics, ggplotify, parallel, plotly, rols, rappdirs,
reshape2, stats, SummarizedExperiment, shinydashboard,
S4Vectors, utils, visNetwork, UpSetR, xml2, yaml
shiny, golem, ggplot2, cowplot, plotly, viridisLite,
shinyWidgets, Polychrome, sessioninfo, grid, grDevices,
methods, AnnotationHub, utils, png, scater, DT, ExperimentHub,
RColorBrewer, SummarizedExperiment, stats, graphics, S4Vectors,
IRanges, fields, benchmarkme, SingleCellExperiment,
BiocFileCache, jsonlite, tibble, rtracklayer, Matrix,
BiocGenerics, GenomicRanges, magick
BiocGenerics, BSgenome, GenomeInfoDb, GenomicFeatures,
GenomicInteractions, GenomicRanges, ggplot2, IRanges,
matrixStats, motifmatchr, S4Vectors, stats,
SummarizedExperiment, TFBSTools, utils
ggplot2, concaveman, BiocParallel, spatstat.core,
spatstat.geom, lmerTest, BiocGenerics, S4Vectors, lme4,
methods, mgcv, pheatmap, rlang, grDevices, IRanges, stats,
data.table, dplyr, tidyr, scam
stats, scales, bamlss, methods, tools, IRanges, Biostrings,
GenomicAlignments, BlandAltmanLeh, GenomeInfoDb, BSgenome,
S4Vectors, graphics, ggplot2, utils
dplyr, magrittr, GenomeInfoDb, GenomicAlignments,
GenomicRanges, IRanges, Rsamtools, S4Vectors, grid,
BiocGenerics, ggplot2, reshape2, stats, gridExtra,
TxDb.Hsapiens.UCSC.hg38.knownGene, methods, stringr, rmarkdown
methods,ontologyIndex, datasets, graphics, stats, utils,
knitr, SummarizedExperiment, S4Vectors, rols
assertthat, Biostrings, stringr, dplyr, methods, rlang,
GenomeInfoDb, S4Vectors, GenomicFeatures
VariantAnnotation, assertthat, Biostrings, stringr, dplyr,
methods, rlang, GenomicFeatures, GenomeInfoDb, S4Vectors, utils
DBI, RSQLite, dplyr, dbplyr, igraph, Rdpack, AnnotationHub
GenomicRanges, SummarizedExperiment, ggplot2, yaml, stringr,
magrittr, S4Vectors, crayon, BiocGenerics, htmlwidgets
ape (>= 5.0), phangorn (>= 2.5), utils, methods
tibble, readr, dplyr, magrittr, tidyr, stringi, stringr,
rlang, purrr, tidyselect, preprocessCore, stats, parallel,
utils, lifecycle, scales, SummarizedExperiment, GenomicRanges,
methods
mgcv, edgeR, SingleCellExperiment, SummarizedExperiment,
slingshot, magrittr, RColorBrewer, BiocParallel, Biobase,
pbapply, igraph, ggplot2, princurve, methods, S4Vectors,
tibble, Matrix, TrajectoryUtils, viridis, matrixStats, MASS
glmGamPoi, DelayedArray, Matrix, MatrixGenerics,
SummarizedExperiment, HDF5Array, methods, utils
ggplot2, viridis, mgcv, SingleCellExperiment, slingshot,
princurve, Biobase, methods, RColorBrewer,
SummarizedExperiment, grDevices, graphics, rgl
stats, utils, tidyr, dplyr, data.table, ggiraph, ggplot2,
hopach, ape, ggtree, patchwork, SingleCellExperiment, diffcyt,
edgeR, lme4, multcomp
RSQLite, RMySQL, lassopv, randomForest, vbsr, xgboost,
RPostgreSQL, methods, DBI, BSgenome,
BSgenome.Hsapiens.UCSC.hg38, BSgenome.Hsapiens.UCSC.hg19,
BSgenome.Mmusculus.UCSC.mm10, SNPlocs.Hsapiens.dbSNP150.GRCh38,
org.Hs.eg.db, Biostrings, GenomicRanges, biomaRt,
AnnotationDbi, WGCNA
shinyjs, shinyFiles, plyr, data.table, DT, stringr,
stringdist, plot3D, gridExtra, RColorBrewer, plotly, dplyr,
pryr, config (>= 0.3.1), golem (>= 0.3.1), methods, grDevices,
graphics, stats, utils
AnnotationHub, ExperimentHub, S4Vectors, dplyr, magrittr,
purrr, rlang, stringr, tibble, tidyr
AnnotationDbi, GenomicFeatures, IRanges, GenomicRanges,
BiocGenerics, Biostrings, S4Vectors, rtracklayer, BiocParallel,
stats, methods, utils
MASS, pbkrtest (>= 0.4-4), lmerTest, Matrix, iterators,
foreach, doParallel, gplots, RhpcBLASctl, progress, reshape2,
aod, scales, Rdpack, rlang, lme4 (>= 1.1-10), grDevices,
graphics, Biobase, methods, utils, stats
Rcpp, Matrix, igraph, mgcv, RSpectra, grDevices, graphics,
stats
igraph, methods, plyr, ggplot2, scico, RColorBrewer, tm,
ggwordcloud, GSEABase, reshape2, grDevices, ggforce, msigdb,
ggrepel, textstem, tidygraph, stats, scales, ggraph
mzR (>= 2.25.3), methods, Biobase, BiocGenerics, ProtGenerics
(>= 1.25.1), lattice, RColorBrewer, plyr, RANN, MassSpecWavelet
(>= 1.5.2), S4Vectors, robustbase, IRanges,
SummarizedExperiment, MsCoreUtils, MsFeatures
Matrix, basilisk, reticulate, SingleCellExperiment (>=
1.11.6), SummarizedExperiment, DelayedArray, methods,
S4Vectors, utils, cli
bit, DNAcopy, tilingArray, waveslim, cluster, aCGH, snapCGH
mia, stats, CVXR, DescTools, Hmisc, MASS, Rdpack, S4Vectors,
SingleCellExperiment, SummarizedExperiment, doParallel, doRNG,
dplyr, emmeans, energy, foreach, lme4, lmerTest, magrittr,
nloptr, parallel, rlang, rngtools, tibble, tidyr, utils
GenomicRanges, GenomicFeatures, GenomicAlignments, DESeq2,
ggrepel, SummarizedExperiment, Rsubread, stats, ggplot2,
methods, rtracklayer, VariantAnnotation, dplyr, tidyr, repmis,
Rsamtools, HybridMTest
reticulate, ggrepel, ggplot2, viridisLite, plotly, Seurat,
SingleCellExperiment, magrittr, SummarizedExperiment, topGO,
methods, stats, utils, org.Hs.eg.db, org.Mm.eg.db, rlang
SingleCellExperiment, SummarizedExperiment, S4Vectors, Rcpp
(>= 1.0.7), cluster, utils, plot3D, ComplexHeatmap, circlize,
grid, grDevices, graphics
DelayedArray, DelayedMatrixStats, data.table, graphics,
grDevices, GSEABase, methods, mixtools, R.utils, shiny, stats,
SummarizedExperiment, BiocGenerics, utils
futile.logger, Rdpack, Matrix, data.table (>= 1.11.8), Rcpp,
abind, stats, graphics, utils, methods, dixonTest, ids
dplyr, NbClust, ggplot2, ggbio, grDevices, stats, tidyr,
GenomicRanges, ggforce, stringr, plyranges, methods, utils,
magrittr
R.utils, data.table, curl, RCurl, digest, methods, stats,
utils, dplyr, RSQLite, graph, Biobase
tidyr, plyr, matrixStats, stats, ggplot2, methods,
rtracklayer, S4Vectors, ggforce
WGCNA, dynamicTreeCut, matrixStats, sva, RColorBrewer,
ComplexHeatmap, ggplot2, ggrepel, patchwork, reshape2, igraph,
ggnetwork, intergraph, networkD3, ggnewscale, NetRep, stats,
grDevices, graphics, utils, methods, BiocParallel, minet,
GENIE3, SummarizedExperiment
BiocFileCache, GenomicRanges, GenomeInfoDb, GEOquery, graph,
methods, utils
igraph, cluster, psych, stringr, GenomicRanges, MASS, scran
biocViews (>= 1.33.7), BiocManager, stringdist, graph, httr,
tools, codetools, methods, utils, knitr
stats, utils, futile.logger, parallel, snow, codetools
readr, stringr, lpSolve, igraph, dplyr, tibble, tidyr, rjson,
rmarkdown
BiocParallel, BiocSet, dplyr, lmom, fitdistrplus, magrittr,
methods, mixtools, Rcpp (>= 1.0.7), stats,
SummarizedExperiment, tibble, TreeSummarizedExperiment, tidyr,
glue, generics, rlang, goftest
shiny, plotly, pheatmap, bioDist, dendextend, cowplot,
corrplot, grDevices, stats, graphics, reshape2, S4Vectors,
SummarizedExperiment
GenomicRanges, IRanges, S4Vectors, BiocParallel, methods,
magrittr, stats, pheatmap, gridExtra, grDevices
dplyr, methods, grDevices, Matrix, ggplot2, ggrepel, stats,
parallel, tibble, tidyr, basilisk, reticulate, ComplexHeatmap,
circlize, grid, scales, utils, rlang, Rfast
cluster, impute, limma, ConsensusClusterPlus, grDevices,
survival
DelayedMatrixStats, DelayedArray, HDF5Array, S4Vectors,
methods, SingleCellExperiment, SummarizedExperiment, ggplot2,
rlang, grDevices, patchwork, reshape2, BiocParallel, stats,
dplyr
BiocGenerics (>= 0.11.3), S4Vectors (>= 0.1.0), IRanges (>=
1.99.17), Rsamtools (>= 1.17.28), GenomicAlignments (>=
1.1.16), chipseq (>= 1.12.0), gtools, methods, reshape2,
Nozzle.R1, Biobase, grDevices, stats, utils, GenomicFeatures,
TxDb.Hsapiens.UCSC.hg19.knownGene,
TxDb.Hsapiens.UCSC.hg18.knownGene,
TxDb.Mmusculus.UCSC.mm10.knownGene,
TxDb.Mmusculus.UCSC.mm9.knownGene,
TxDb.Rnorvegicus.UCSC.rn4.ensGene,
TxDb.Celegans.UCSC.ce6.ensGene,
TxDb.Dmelanogaster.UCSC.dm3.ensGene
AnnotationDbi, BiocGenerics, boot, enrichplot, IRanges,
GenomeInfoDb, GenomicRanges, GenomicFeatures, ggplot2,
ggVennDiagram, gplots, graphics, grDevices, gtools, methods,
plotrix, dplyr, parallel, magrittr, RColorBrewer, rtracklayer,
S4Vectors, stats, TxDb.Hsapiens.UCSC.hg19.knownGene, utils
shiny, colourpicker, shinyjs, rtracklayer, shinyFiles,
shinyhelper, shinyWidgets, shinydashboardPlus, shinycssloaders,
Matrix, plotly, shinydashboard, colorRamps, kableExtra,
viridis, batchelor, BiocParallel, parallel, Rsamtools, ggplot2,
ggrepel, gggenes, gridExtra, qualV, stringdist, fs, qs, DT,
scran, scater, ConsensusClusterPlus, Rtsne, dplyr, tidyr,
GenomicRanges, IRanges, irlba, rlist, umap, tibble, methods,
jsonlite, edgeR, stats, graphics, grDevices, utils, S4Vectors,
SingleCellExperiment, SummarizedExperiment, msigdbr, forcats,
Rcpp, coop, matrixTests, DelayedArray
grid, utils, dplyr, tidyr, rlang, randomForest
circlize (>= 0.4.14), GetoptLong, colorspace, clue,
RColorBrewer, GlobalOptions (>= 0.1.0), png, digest, IRanges,
matrixStats, foreach, doParallel, codetools
BiocGenerics, ChemmineR, tibble, jsonlite, dplyr, DBI, dbplyr,
RSQLite, Biobase, ProtGenerics, xml2, IRanges, Spectra (>=
1.5.17), MsCoreUtils, MetaboCoreUtils
Biobase, S4Vectors, MultiAssayExperiment, MatrixGenerics,
piano, BiocParallel, parallel, BumpyMatrix, checkmate, methods,
stats, utils, graphics, grDevices, lsa, data.table, crayon,
glue, rlang, bench
Biobase, MSnbase, DAPARdata (>= 1.26.3), utils, highcharter,
foreach
Biobase, GEOquery, impute, limma, pheatmap, plyr, scales,
snpStats, sva, swamp, stats, methods, utils, bnstruct,
RColorBrewer, grDevices
utils, graphics, stats, splines, matrixStats
methods, matrixStats (>= 0.60.0), sparseMatrixStats, Matrix
(>= 1.5-0), S4Vectors (>= 0.17.5), IRanges (>= 2.25.10)
methods, Rcpp, doRNG, MASS, data.table, doParallel, parallel,
foreach, stats, BANDITS, Matrix, SingleCellExperiment,
SummarizedExperiment, ggplot2
GenomicRanges, ggplot2, reshape, grid, grDevices, graphics,
methods, parallel, stats, utils, IRanges, GenomeInfoDb,
S4Vectors, GenomicFeatures, TCGAbiolinks (>= 2.23.7), plyr,
Matrix, dplyr, Gviz, ComplexHeatmap, circlize,
MultiAssayExperiment, SummarizedExperiment, biomaRt,
doParallel, downloader, ggrepel, lattice, magrittr, readr,
scales, rvest, xml2, plotly, gridExtra, rmarkdown, stringr,
tibble, tidyr, progress, purrr, reshape2, ggpubr, rtracklayer,
DelayedArray
stats, utils, methods, ewceData, dplyr, ggplot2, reshape2,
limma, stringr, HGNChelper, Matrix, parallel,
SingleCellExperiment, SummarizedExperiment, DelayedArray,
BiocParallel, orthogene (>= 0.99.8), data.table
methods, stats, survivalROC, glmnet, rms, mboost, Matrix,
igraph, survivalsvm, ggplot2, BiocFileCache, boot, e1071,
survival, utils
GenomicRanges, genomation, IRanges, reshape2, ggplot2,
ChIPseeker, BRGenomics, clusterProfiler, plotly, stringr,
dplyr, tidyr, UpSetR, rmarkdown, rtracklayer, AnnotationHub,
utils, stats, methods, org.Hs.eg.db, S4Vectors, magrittr,
plyranges
GenomicFeatures, stringr, GenomeInfoDb, igraph, MASS, nnls,
limma, matrixStats, RBGL, prodlim, graph, methods, utils,
stats, doParallel, foreach, affxparser, GenomicRanges,
S4Vectors, IRanges, qvalue, cobs, rhdf5, BSgenome, Biostrings,
glmnet, abind, iterators, lpSolve, poibin, speedglm, tximport,
fgsea
basilisk, reticulate, SingleCellExperiment,
SummarizedExperiment, Rsamtools, utils, zlibbioc, scater,
dplyr, tidyr, magrittr, S4Vectors, scuttle, stats, rtracklayer,
igraph, ggbio, GenomicRanges, Matrix, BiocGenerics, ggplot2,
scran, ComplexHeatmap, RColorBrewer, circlize, grid, gridExtra,
cowplot, stringr, bambu, GenomeInfoDb, withr, Biostrings,
GenomicFeatures
genefilter, nlme, quadprog, graphics, stats, utils,
AnnotationHub, SummarizedExperiment, S4Vectors
SummarizedExperiment,
IlluminaHumanMethylation450kanno.ilmn12.hg19(>= 0.2.1),
IlluminaHumanMethylationEPICanno.ilm10b4.hg19, utils,
AnnotationHub
stats, utils, methods, ggplot2, tidyr, expm, Rcpp,
RcppParallel, gdsfmt
readr (>= 1.3.1), xml2, dplyr, data.table, tidyr, magrittr,
limma, curl, R.utils
futile.logger, checkmate, patchwork, reshape2, data.table,
matrixStats, Matrix, GenomicRanges, RColorBrewer,
ComplexHeatmap, DESeq2, csaw, circlize, robust, progress,
utils, methods, stringr, scales, BiocManager, BiocParallel,
igraph, S4Vectors, ggplot2, rlang, Biostrings, GenomeInfoDb,
IRanges, SummarizedExperiment, forcats, gridExtra, limma,
purrr, tidyselect, readr, grid, tidyr, dplyr, stats, grDevices,
graphics, magrittr, tibble, viridis, BiocFileCache, colorspace
methods, stats, utils, graphics, S4Vectors, IRanges, Biobase,
SummarizedExperiment, GSEABase, Matrix (>= 1.5-0), parallel,
BiocParallel, SingleCellExperiment, sparseMatrixStats,
DelayedArray, DelayedMatrixStats, HDF5Array, BiocSingular
BiocParallel, Biostrings, CRISPRseek, ChIPpeakAnno,
data.table, matrixStats, BSgenome, parallel, IRanges (>=
2.5.5), S4Vectors (>= 0.9.6), GenomicAlignments (>= 1.7.3),
GenomeInfoDb, Rsamtools, hash, limma,dplyr, GenomicFeatures
tensorflow, word2vec, DeepPINCS, ttgsea, CatEncoders,
reticulate, stats
AnnotationDbi, backbone, bs4Dash (>= 2.0.0), circlize,
colorspace, colourpicker, ComplexHeatmap, ComplexUpset,
dendextend, DESeq2, dplyr, DT, dynamicTreeCut, expm, ggforce,
ggplot2, ggrepel, GO.db, graphics, grDevices, grid, igraph,
matrixStats, methods, plotly, RColorBrewer, rintrojs, rlang,
rmarkdown, S4Vectors, scales, shiny, shinyAce, shinycssloaders,
shinyWidgets, stats, SummarizedExperiment, tidyr, tippy, tools,
utils, viridis, visNetwork
stats, httr, xml2, jsonlite, utils, rlang, readr,
GenomicRanges, IRanges, dplyr, rappdirs, tibble
data.table, ggplot2, reshape2, methods, utils, Biostrings,
plyr, dplyr, scales, broom, GenomeInfoDb, stats
AnnotationDbi, graph, GO.db, GenomicRanges, GenomicFeatures,
GenomeInfoDb, methods, IRanges, RBGL, S4Vectors
stats, utils, XML, httr, Biobase, BiocManager, BiocFileCache,
IRanges (>= 2.3.23), Biostrings, GenomeInfoDb, AnnotationHub,
rhdf5, DelayedArray, HDF5Array
BiocGenerics, rjson, readxl, EnvStats, reshape2, methods,
utils, stats, data.table, lmerTest, dplyr, stringr, grDevices,
graphics, GGally, rlang, ggplot2, SeuratObject
dplyr (>= 1.0.6), httr (>= 1.4.2), readr, tidyr, tibble,
utils, stringr, magrittr, caret, corrplot, ggplot2, pROC,
PRROC, igraph, graphics, stats, purrr, grDevices, protr, MCL
Rcpp (>= 0.11.2), graphics, stats, Ckmeans.1d.dp, parallel,
methods, matrixStats
utils, dplyr, readr, tidyr, purrr, rlang, tibble,
BiocParallel, stringr, fs, lubridate, lifecycle, ggplot2,
ggrepel, stats, psych, data.table, readxl, tools, Rcapture,
grDevices, forcats, glue, shiny, shinyWidgets, datamods, bslib
AnnotationDbi,batchtools,Biobase,Biostrings,BSgenome,cleanUpdTSeq,
depmixS4,dplyr,flock,future,future.apply,GenomeInfoDb,GenomicRanges,
GenomicFeatures, ggplot2, IRanges, limma,
magrittr,methods,parallelly, plyranges, preprocessCore,
readr,reshape2, RSQLite, stats,S4Vectors, utils
grDevices, stats, shiny, grid, GetoptLong, S4Vectors (>=
0.26.1), digest, IRanges, kableExtra (>= 1.3.1), utils,
svglite, htmltools, clisymbols, jsonlite, RColorBrewer,
fontawesome
curl, igraph, foreach, doParallel, sortable, dplyr, data.tree,
graphics, grDevices, parallel, RColorBrewer, Rfast, stats,
SummarizedExperiment, utils, purrr, stringi, stringr, Matrix,
tidyr, jsonlite, readr, configr, DT, tools, fs, data.table,
htmltools, htmlwidgets, bsplus, shiny, shinythemes, shinyFiles,
shinyjs, shinyBS, shinydashboard, biomaRt, callr
data.tree, reshape2, networkD3, stringdist, purrr, ape,
cowplot, ggnewscale, stringr, dplyr, rlist, pheatmap,
Biostrings, IRanges, BiocGenerics(>= 0.36.1), ggtree
cBioPortalData, parallel, stringr, reshape2, data.table,
RColorBrewer, methods, LowMACAAnnotation, BiocParallel,
motifStack, Biostrings, httr, grid, gridBase, plyr
Biobase, gridExtra, ggplot2, ggrepel, grDevices, grid,
reshape2, stats, utils, DOSE, clusterProfiler, pathview,
enrichplot, msigdbr, depmap
methods, magrittr, phyloseq, limma, lme4, lmerTest, pheatmap,
rmarkdown, cluster, dplyr, ggplot2, gridExtra, ruv, sva,
tibble, tidyr, vegan, stats, utils, Matrix
Maaslin2, metafor, fpc, igraph, ggplot2, dplyr, tidyr,
stringr, cowplot, utils, stats, grDevices
ggplot2, readr, magrittr, dplyr, purrr, reshape2, gridExtra,
utils, stringr, ggpubr, stats, cowplot, RColorBrewer, tidyr,
scales, grid, rlang, ggforce, grDevices, gtable, plyr, knitr,
rmarkdown, ggrepel, gghalves, tools
Rcpp, Biostrings, GenomicRanges, IRanges, ape, doParallel,
dplyr, foreach, methods, parallel, rlang, seqinr, stringr,
tibble, tidyr, stats, stringi
SummarizedExperiment, S4Vectors, pcaMethods (>= 1.24.0), crmn,
preprocessCore, dplyr (>= 0.7), tidyr, tibble (>= 1.2),
magrittr, rlang, stats, stringr, methods, missForest, sva, VIM,
BiocParallel, DelayedArray, WGCNA, ff, data.table,
dynamicTreeCut, Maaslin2, plyr, stats, psych, xml2, RCurl,
RJSONIO, logging, methods, utils
BiocGenerics, MsCoreUtils, MetaboCoreUtils, ProtGenerics,
methods, S4Vectors, Spectra (>= 1.5.7), BiocParallel,
SummarizedExperiment, QFeatures, graphics
dplyr, plyr, GenomicRanges, SummarizedExperiment,
DelayedArray, ggplot2, ggpubr, tibble, tidyr, S4Vectors,
sesameData, sesame, AnnotationHub, ExperimentHub, stringr,
readr, methods, stats, Matrix, MASS, rlang, pscl, IRanges,
sfsmisc, progress, utils
ape, tidyr, ggplot2, magrittr, dplyr, Biostrings, ggrepel,
vegan, zoo, ggtree, tidytree (>= 0.3.9), MASS, methods, rlang,
tibble, grDevices, stats, utils, coin, ggsignif, patchwork,
ggstar, tidyselect, SummarizedExperiment, foreach, treeio (>=
1.17.2), pillar, plyr, dtplyr, ggtreeExtra
S4Vectors, stats, utils, methods, grDevices, graphics,
BiocGenerics, BSgenome, GenomeInfoDb, MASS, IRanges,
GenomicRanges, Biostrings, GenomicAlignments, edgeR, mixtools
MsCoreUtils, S4Vectors, IRanges, rawrr (>= 1.3.6), utils,
BiocParallel
methods, stats, MultiAssayExperiment, SingleCellExperiment,
SummarizedExperiment, DelayedArray
Matrix, ggplot2, MultiAssayExperiment, ropls, graphics,
methods, plotrix, grDevices, pcaMethods
magrittr, data.table, utils, R.utils, dplyr, stats,
GenomicRanges, IRanges, GenomeInfoDb, BSgenome, Biostrings,
VariantAnnotation, googleAuthR, httr, jsonlite, methods,
parallel, rtracklayer, RCurl
cpp11 (>= 0.2.5), readr, S4Vectors, SummarizedExperiment,
BiocSingular, bsseq, forcats, assertthat, AnnotationDbi, Rcpp,
dplyr, data.table, e1071, fs, GenomicRanges, glue, limma (>=
3.44.0), patchwork, purrr, rlang, RSQLite, Rsamtools, scales,
scico, stats, stringr, tibble, tidyr, utils, withr, zlibbioc
GenomicRanges, methods, data.table, assertthat, ggplot2, Gviz,
IRanges, AnnotationHub, grDevices, stats, GenomeInfoDb, shiny,
shinyFiles, DT, rtracklayer, shinydashboard, shinyBS,tidyr
AnnotationDbi (>= 1.45.0), Biostrings (>= 2.51.1), biomaRt,
biomartr, BiocGenerics (>= 0.29.1), BiocParallel (>= 1.19.0),
BSgenome, cowplot (>= 1.0.0), data.table (>= 1.11.8), DESeq2
(>= 1.24.0), fst (>= 0.9.2), GenomeInfoDb (>= 1.15.5),
GenomicFeatures (>= 1.31.10), ggplot2 (>= 2.2.1), gridExtra (>=
2.3), httr (>= 1.3.0), jsonlite, methods (>= 3.6.0), R.utils,
Rcpp (>= 1.0.0), Rsamtools (>= 1.35.0), rtracklayer (>=
1.43.0), stats, SummarizedExperiment (>= 1.14.0), S4Vectors (>=
0.21.3), tools, utils, xml2 (>= 1.2.0)
checkmate, crayon, curl, digest, dplyr, httr, igraph,
jsonlite, later, logger, magrittr, progress, purrr, rappdirs,
readr(>= 2.0.0), readxl, rlang, rmarkdown, stats, stringr,
tibble, tidyr, tidyselect, tools, utils, withr, xml2, yaml
broom, caret, ComplexHeatmap, dplyr, e1071, ggplot2, ggrepel,
glasso (>= 1.11), glmnet, impute, knitr, limma, magrittr,
mixOmics, randomForest, RankProd (>= 3.14), rmarkdown,
SummarizedExperiment, tibble, tidyr, vegan
utils, stats, igraph, methods, Matrix, BiocParallel,
BiocGenerics, ProtGenerics (>= 1.27.1), QFeatures, MsCoreUtils
clusterProfiler, dplyr, forcats, GSEABase, igraph, limma,
metap, org.Hs.eg.db, parallel, preprocessCore, RColorBrewer,
rlang, tibble, withr, utils
BiocFileCache, BiocGenerics, methods, GenomicRanges, IRanges,
S4Vectors, edgeR, cli, utils
BiocGenerics, Biobase, S4Vectors, SummarizedExperiment,
MultiAssayExperiment, BiocParallel, ggplot2, magicaxis,
RColorBrewer, parallel, caTools, methods, downloader, stats,
utils, graphics, grDevices, reshape2, jsonlite, data.table,
checkmate, boot, coop
bnlearn (>= 4.7), C50 (>= 0.1.2), MASS, matrixStats, partykit,
Rgraphviz, WGCNA, GO.db, impute, preprocessCore, grDevices,
graphics, stats, utils, parallel, pheatmap (>= 1.0.8), dplyr,
gdata, clusterProfiler, ReactomePA, ggplot2, openxlsx, DBI,
DOSE
DAPAR (>= 1.28.5), rhandsontable, data.table, shiny, shinyBS,
shinyAce, highcharter, MSnbase, shinyWidgets, shinycssloaders,
htmlwidgets, RColorBrewer, shinyjqui, later
RColorBrewer, alabama, edgeR, reshape2, tseries, stats, VGAM,
ggplot2 (>= 2.2.1.9000), nleqslv, phyloseq, tensor, MASS,
grDevices, graphics, methods
graphics, methods, stats, utils, grid, gridExtra, reshape2,
gplots, ggplot2, plotrix, RColorBrewer, STRINGdb, MCL,
linkcomm, dynamicTreeCut, gsubfn, hash, png, sqldf, igraph,
BgeeDB, knitr, RITANdata, GenomicFeatures, ensembldb,
AnnotationFilter, EnsDb.Hsapiens.v86
SummarizedExperiment, BiocGenerics, data.table, S4Vectors,
Biobase, parallel, BiocParallel, RColorBrewer, caTools,
magicaxis, methods, reshape2, scales, grDevices, graphics,
stats, utils, assertthat, matrixStats, downloader
AUCell (>= 1.1.6), BiocGenerics, data.table, graphics,
GenomeInfoDb, GenomicRanges, arrow (>= 2.0.0), dplyr, tibble,
GSEABase, methods, R.utils, stats, SummarizedExperiment,
S4Vectors, utils
stats, utils, methods, RCurl, rjson, foreach, doParallel,
Biostrings, GOSemSim, rcdk (>= 3.3.8)
AnnotationDbi, DOSE (>= 3.5.1), enrichplot, ggplot2 (>=
3.3.5), ggraph, reactome.db, igraph, graphite
Rcpp (>= 1.0.2), graphics, stats, data.table, elitism,
methods, S4Vectors, IRanges, GenomicRanges, matrixStats,
reldist, doParallel, foreach, parallel, qvalue, DESeq2,
ggplot2, BiocFileCache,BiocGenerics
biomaRt,edgeR,heatmap3,matlab,KEGGREST,methods,grDevices,
graphics, stats, Rcpp (>=
0.11.2),recount,ggpubr,SummarizedExperiment,tidyr,dplyr,tidyselect,utils
stats, methods, ROTS, matrixStats, foreach, parallel,
doParallel, doRNG, rngtools, SummarizedExperiment, nlme,
qvalue, grDevices, graphics, utils
BiocParallel, Matrix, SummarizedExperiment, DESeq2, S4Vectors,
data.table, edgeR, openxlsx, stats, sva, sechm
beanplot, glmnet, graphics, grDevices, grid, gridBase,
gridExtra, LiblineaR, matrixStats, methods, pROC, PRROC,
RColorBrewer, scales, stats, stringr, utils, infotheo,
progress, corrplot, lmerTest, mlr3learners, mlr3tuning,
paradox, lgr
Biobase, stats, ppcor, logging, foreach, doRNG, data.table,
MASS, expm, gRbase, glmnet, igraph, iterators, tidyverse,
caret, dplyr, biomaRt, randomForest, ggridges, cvms,
miRBaseConverter, ComplexHeatmap, ggplot2, MetBrewer, rlang,
tnet, ggpubr, stringr, tidyr
ggplot2, NMF, Matrix, matrixStats, nnls, SingleCellExperiment,
stats
topicmodels, BiocParallel, Matrix, methods, mgcv, ggplot2,
scatterpie, viridis, slam, stats, clue, liger, reshape2,
graphics, grDevices, utils
rjson, grDevices, magick, utils, S4Vectors,
SummarizedExperiment, DropletUtils, BiocGenerics, BiocFileCache
methods, IRanges, MsCoreUtils (>= 1.7.5), graphics, grDevices,
stats, tools, utils, fs, BiocGenerics
httr, igraph, utils, stats, miRNAtap, miRNAtap.db,
AnnotationDbi, org.Hs.eg.db, gdata
utils, stats, tools, Matrix, BiocGenerics (>= 0.37.0),
S4Vectors (>= 0.33.7), IRanges (>= 2.23.9), GenomeInfoDb (>=
1.13.1), DelayedArray (>= 0.15.10)
methods, Biostrings, S4Vectors, IRanges, utils, stats,
parallel, graphics, grDevices
ASSIGN (>= 1.23.1), BiocGenerics, BiocParallel,
ComplexHeatmap, DESeq2, DT, edgeR, gdata, ggplot2, GSVA,
magrittr, methods, RColorBrewer, reshape2, rlang, ROCit,
S4Vectors, singscore, stats, SummarizedExperiment
downloader (>= 0.4), grDevices, biomaRt, dplyr, graphics,
tibble, GenomicRanges, XML (>= 3.98.0), data.table, jsonlite
(>= 1.0.0), plyr, knitr, methods, ggplot2, stringr (>= 1.0.0),
IRanges, rvest (>= 0.3.0), stats, utils, S4Vectors, R.utils,
SummarizedExperiment (>= 1.4.0), TCGAbiolinksGUI.data (>=
1.15.1), readr, tools, tidyr, purrr, xml2, httr (>= 1.2.1)
apeglm, biomaRt, DESeq2, Rcpp (>= 1.0.7), SCBN,
SummarizedExperiment, stats, utils
GenomicRanges, S4Vectors, grDevices, graphics, stats, utils,
IRanges, methods, ORFik
bnlearn, Rgraphviz, gtools, parallel, foreach, doParallel,
iterators, RColorBrewer, circlize, igraph, grid, gridExtra,
xtable, gtable, scales, R.matlab, grDevices, graphics, stats,
utils, methods
SummarizedExperiment, BiocGenerics, S4Vectors, Biobase,
BiocParallel, ggplot2, tibble, dplyr, caTools, downloader,
magrittr, methods, reshape2, tidyr, data.table, assertthat,
scales, graphics, grDevices, parallel, stats, utils, limma,
jsonlite
methods, data.table(>= 1.13.6), Matrix, BiocParallel,
SingleCellExperiment, SummarizedExperiment
AnnotationHub, AnnotationDbi, BiocGenerics, Biostrings,
BSgenome, data.table (>= 1.9.4), DT, GenomicFeatures,
GenomeInfoDb, GenomeInfoDbData, GenomicAlignments,
GenomicRanges, ggplot2, ggrepel, gsubfn, mirbase.db, moments,
Organism.dplyr, plotgardener, R.utils, S4Vectors, shiny,
shinydashboard, shinyFiles, shinyjs, yaml
AnnotationDbi, BiocFileCache, cellxgenedp, jsonlite, httr,
httpcache, progress
SingleCellExperiment, SummarizedExperiment, tensorflow,
scater, CatEncoders, DeepPINCS, purrr, DiagrammeR, stats
IRanges, GenomicRanges, S4Vectors, parallel, matrixStats,
GenomicAlignments, GenomeInfoDb, Rsamtools, cluster, stats,
graphics, methods
rmarkdown (>= 2.5), tools, methods, ggplot2, GGally, dplyr,
rjson, shiny, shinydashboard, DT, stats, utils, tximport (>=
1.17.4), cowplot, rlang, Rcpp
methods, stats, Matrix, BiocGenerics, BiocParallel, S4Vectors,
IRanges, GenomicRanges, GenomicAlignments, Rsamtools,
GenomeInfoDb, SQUAREM, sparseMatrixStats, AnnotationHub, scales
Rcpp (>= 1.0.4.6), pRolocdata, lbfgs, ggplot2, dplyr, plyr,
knitr, methods, BiocParallel, robustbase, BiocStyle,
ggalluvial, ggrepel, tidyr, circlize, graphics, stats, utils,
grDevices, rlang
cli, edgeR, BiocParallel, methods, progressr, stats,
SummarizedExperiment, utils
stats, stats4, utils, methods, phyloseq,
TreeSummarizedExperiment, BiocParallel, zinbwave, edgeR,
DESeq2, limma, ALDEx2, SummarizedExperiment, MAST, Seurat,
ANCOMBC, NOISeq, dearseq, metagenomeSeq, MGLM, ggplot2,
RColorBrewer, plyr, reshape2, ggdendro, ggridges, graphics,
cowplot, tidytext
R.oo, R.methodsS3, httr, DT (>= 0.3), dplyr (>= 0.7.2), shiny
(>= 1.0.5), AlgDesign (>= 1.1.7.3), import (>= 1.1.0), methods,
AnnotationDbi, shinythemes, Biobase, geNetClassifier,
org.Hs.eg.db, org.Bt.eg.db, DOSE, clusterProfiler, reactome.db,
ReactomePA, DiagrammeR(<= 1.01), visNetwork, htmlwidgets, plyr,
tibble, GO.db
utils, XML (>= 3.99-0.7), AnnotationDbi, progress, stringr,
httr, digest, BiocFileCache, rappdirs, xml2
Biobase, methods, e1071, grDevices, graphics,
MultiAssayExperiment, MultiDataSet, randomForest, ropls, stats,
SummarizedExperiment, utils
readr, qualV, Matrix, impute, HDF5Array, S4Vectors, Rsamtools,
data.table, Biobase, GenomicRanges, IRanges, BiocGenerics,
VariantAnnotation, DelayedMatrixStats, SummarizedExperiment,
GenomeInfoDb, Mus.musculus, Homo.sapiens, matrixStats,
rtracklayer, QDNAseq, dmrseq, methods, utils, R.utils, gtools,
BiocParallel
doParallel, snow, purrr, plyr, foreach, gamlss, gamlss.dist,
bsseq, methods, DSS, R.utils, utils, stats, ggplot2, cowplot,
dplyr, rlang, GenomicRanges
GSEABase, tkrplot, geNetClassifier, RUnit, Formula, rpart,
survival, Biobase, phenoTest, circlize, plyr, graphics, stats,
utils, grDevices, R.oo, R.methodsS3, httr
BiocFileCache, RColorBrewer, cBioPortalData, genefilter,
gplots, grDevices, stats, utils, openxlsx
plyr, foreach, ggplot2, RColorBrewer, grid, scales, gtable,
grDevices, graphics, matrixStats, doParallel, digest, methods,
reshape2, S4Vectors, data.table, Rcpp, RcppEigen, uwot,
enrichR, SummarizedExperiment, MCMCprecision, ggrepel, Rtsne,
withr, scater (>= 1.14.4), scran, dbscan, DelayedArray,
stringr, ComplexHeatmap, multipanelfigure, circlize
dplyr, httr, curl, jsonlite, utils, tools, parallel, shiny, DT
BSgenome, GenomicRanges, seqinr, e1071, Biostrings,
GenomeInfoDb, IRanges, utils, stringr, stats, S4Vectors
AnnotationHub, BiocParallel, bumphunter, ExperimentHub,
GenomicRanges, IRanges, lmerTest, methods, stats, utils
utils, stats, methods, reshape2, ggplot2, ggtree, patchwork,
igraph, Biostrings
methods, ggplot2, reshape2, dplyr, gridExtra, plotly,
circlize, rlang, GenomicRanges, IRanges, foreach, BiocParallel,
GenomeInfoDb, scales, RColorBrewer, tidyr, S4Vectors, utils,
Matrix, grid, stats, SummarizedExperiment, plyr, Gviz
tcltk, knitr (>= 1.2), markdown, ROCR, lattice (>= 0.16),
gplots, gtools, caTools, grid, KernSmooth, MASS, ggplot2,
stringr, modeest, edgeR, limma, vioplot, methods, stats, utils,
ape, phylolm, matrixStats, grDevices, graphics
org.Hs.eg.db, org.Mm.eg.db, dbscan, fpc, factoextra, Biobase,
BiocFileCache, parallel, doParallel, foreach,
SummarizedExperiment, biomaRt, AnnotationDbi, methods, dplyr,
scran, scater, pheatmap, ggplot2, gridExtra,
SingleCellExperiment, stats, utils, scales, grDevices,
graphics, Rtsne, GEOquery, clusterProfiler, stringr, tools,
rlang
slingshot (>= 1.9), mgcv, RANN, stats, SingleCellExperiment,
SummarizedExperiment, utils, magrittr, dplyr (>= 1.0), Ecume
(>= 0.9.1), methods, pbapply, matrixStats, BiocParallel,
TrajectoryUtils, igraph, distinct
ggplot2, ggthemes, grDevices, gridExtra, irlba, Matrix,
methods, MultiAssayExperiment, pals, reshape2,
SingleCellExperiment, SummarizedExperiment, transport
CARNIVAL, dorothea, dplyr, GSEABase, igraph, progress, purrr,
rlang, stringr, utils, visNetwork
BiocGenerics, Biostrings, GenomicRanges, IRanges, S4Vectors,
stringr
BiocGenerics, Biostrings, BSgenome, crisprBase (>= 0.99.15),
GenomeInfoDb, GenomicRanges, IRanges, Rbowtie, readr, stats,
stringr, utils
BiocGenerics, BSgenome, crisprBase (>= 0.99.15), GenomeInfoDb,
Rbwa, readr, stats, stringr, utils
basilisk (>= 1.3.5), BiocGenerics, Biostrings, IRanges,
methods, randomForest, reticulate, stringr, utils, XVector
gplots, tools, flowCore, grDevices, stats, utils, matrixStats,
methods
S4Vectors, BiocParallel, HDF5Array, DelayedArray,
RColorBrewer, viridis, utils, SummarizedExperiment, tools,
graphics, raster, grDevices, stats, ggplot2, ggbeeswarm,
svgPanZoom, svglite, shiny, shinydashboard, matrixStats, rhdf5,
nnls
stats, methods, assertthat, graph, pcalg, purrr, tidyverse,
Matrix, ggraph, tidygraph, ggplot2, rlang, expm, MASS, edgeR,
epiNEM, igraph, metap, mnem, naturalsort, ppcor, glm2,
graphite, reshape2, dplyr, magrittr, glue, Rgraphviz,
harmonicmeanp, org.Hs.eg.db, logger, shadowtext
CompQuadForm, dplyr, ggplot2, KernSmooth, magrittr,
matrixStats, methods, patchwork, parallel, pbapply, reshape2,
rlang, stats, statmod, survey, tibble, viridisLite
Rcpp, Biobase, stats, biwt, gtools, MASS, tools, dplyr,
methods, utils
Rcpp, Rfast, stats, SummarizedExperiment,
SingleCellExperiment, methods, Matrix, foreach, parallel,
doParallel, doRNG, ggplot2, limma, scater
progeny, easierData, dorothea (>= 1.6.0), quantiseqr, ROCR,
grDevices, stats, graphics, ggplot2, ggpubr, DESeq2, utils,
dplyr, matrixStats, rlang, BiocParallel, reshape2, rstatix,
ggrepel, coin
minfi, bumphunter, isotree, robustbase, ggplot2,
GenomicRanges, GenomicFeatures, IRanges, SummarizedExperiment,
stats, matrixStats, BiocGenerics, S4Vectors, utils, biomaRt,
BiocParallel
GenomicRanges, SummarizedExperiment, BiocGenerics, S4Vectors,
IRanges, viridisLite, graphics, plotrix, grDevices, stats,
methods
Rcpp (>= 0.12.11), methods, knitr, Rbowtie2, rtracklayer,
ggplot2, Biostrings, ChIPseeker, clusterProfiler, igraph,
rJava, magrittr, digest, BSgenome, AnnotationDbi,
GenomicAlignments, GenomicFeatures, R.utils, GenomeInfoDb,
BiocGenerics, S4Vectors, IRanges, rmarkdown, tools,
VennDiagram, grid, JASPAR2018, TFBSTools, grDevices, graphics,
stats, utils, parallel, corrplot, BiocManager, motifmatchr
grDevices, dplyr, ggplot2, GSEABase, GSVA,
SingleCellExperiment, ggridges, msigdbr, stats, BiocParallel,
Matrix, UCell, broom, reshape2, patchwork, MatrixGenerics,
utils, rlang, stringr, data.table, SummarizedExperiment,
methods
BiocIO, broom, ComplexUpset, csaw, dplyr, edgeR,
EnrichedHeatmap, forcats, GenomeInfoDb, GenomicInteractions,
ggforce, ggrepel, ggside, glue, grDevices, grid, Gviz,
InteractionSet, IRanges, limma, methods, RColorBrewer, rlang,
Rsamtools, rtracklayer, S4Vectors, scales, stats, stringr,
tidyr, tidyselect, utils, vctrs, VennDiagram
KEGGREST, mgcv, stats, BiasedUrn, dplyr, gprofiler2,
rWikiPathways, reactome.db, stringr, GO.db, ontologyIndex,
tidyr, shiny, shinydashboard, shinyBS, plotly, magrittr, DT,
clusterProfiler, org.Hs.eg.db
ape, data.table, dynamicTreeCut, methods, R.utils, rJava,
stats, stringr, utils
graphics, stats, utils, methods, abind, gtools, qvalue,
S4Vectors, IRanges, SummarizedExperiment, GenomicRanges,
matrixStats, svMisc, Rcpp, Matrix, SingleCellExperiment,
jsonlite
BiocGenerics, methods, Biobase, graph, flowCore, parallel
BiocGenerics, MASS, flowCore (>= 1.99.6), flowWorkspace,
ncdfFlow(>= 2.19.5), flowViz, fda (>= 2.2.6), Biobase, methods,
grDevices, graphics, stats, cluster, utils, KernSmooth,
lattice, ks, RColorBrewer, rrcov, corpcor, mnormt
gdsfmt, ggrepel, grDevices, RColorBrewer, rlang, scales,
SeqArray (>= 1.32.0), stats
Biostrings, ggplot2, magrittr, tidyr, utils, stats, aplot,
RColorBrewer, ggalt, ggforce, dplyr, R4RNA, grDevices,
seqmagick, grid, methods, statebins, ggtree (>= 1.17.1)
ggplot2, utils, rlang, ggnewscale, stats, ggtree, tidytree (>=
0.3.9)
ape, aplot, dplyr, ggplot2 (>= 3.0.0), grid, magrittr,
methods, purrr, rlang, ggfun (>= 0.0.6), yulab.utils, tidyr,
tidytree (>= 0.3.9), treeio (>= 1.8.0), utils, scales
SummarizedExperiment, biomaRt, futile.logger, futile.options,
forcats, utils, dplyr, glue, readr, digest, httr, ggplot2,
survminer, reshape2, stringr, parallel, methods
AnnotationDbi, graph (>= 1.67.1), httr, rappdirs, stats,
utils, graphics, rlang
assertthat, biomaRt, Biobase, BiocGenerics, checkmate (>=
2.1), circlize, ComplexHeatmap, DESeq2, dplyr, edgeR, EnvStats,
forcats, GenomicRanges, ggplot2, ggrepel (>= 0.9), IRanges,
lifecycle, limma, magrittr, matrixStats, methods,
MultiAssayExperiment, purrr, R6, Rdpack, rlang, stats,
S4Vectors, tidyr, utils
shiny (>= 0.9.1.9008), shinydashboard, shinyBS, reshape2,
ggplot2 (>= 2.0.0), scales, ROCR, dplyr, DT, limma, methods,
UpSetR, markdown
graphics, grDevices, RColorBrewer, gplots, futile.logger,
stats, utils, methods, ape, phyclust, Matrix, fastcluster,
parallelDist, dplyr, HiddenMarkov, ggplot2, edgeR, coin,
caTools, digest, RANN, leiden, reshape, rjags, fitdistrplus,
future, foreach, doParallel, BiocGenerics,
SummarizedExperiment, SingleCellExperiment, tidyr, parallel,
coda, gridExtra, argparse
aods3, Biobase, DESeq2, DSS, ggplot2, gplots, graphics,
grDevices, matrixStats, stats, utils, foreach, doParallel,
parallel, shiny, shinycssloaders, ade4, factoextra, DT
VariantAnnotation, MatrixGenerics, SummarizedExperiment,
data.table, stringr, httr, utils
data.table, grDevices, methods, RColorBrewer, Rhtslib,
survival, DNAcopy
parallel, doParallel, psych, WGCNA, data.table, igraph,
visNetwork, cluster, clusterSim, methods, graphics, stats
rtracklayer, gplots, tools, GenomicAlignments, GenomeInfoDb,
GenomicFeatures, IRanges, ggplot2, Rsamtools, matrixStats,
purrr, data.table, magrittr, methods, utils, ensembldb,
EnsDb.Hsapiens.v86, stringr
Rcpp (>= 1.0.6), ExperimentHub, dplyr, impute,
PerformanceAnalytics, Biobase, ggpmisc, tidyverse, ggplot2,
ggpubr, minfi, tibble, RPMM, stats, graphics, tidyr, gridExtra,
preprocessCore, dynamicTreeCut, planet
corpcor, parallel, igraph, MCL, clusterProfiler, ReactomePA,
DOSE, survival, grDevices, graphics, stats, linkcomm, utils,
Rcpp, org.Hs.eg.db, SPONGE, foreach, doParallel
deSolve, stats, poweRlaw, gtools, S4Vectors, MatrixGenerics
dplyr, phyloseq, magrittr, purrr, MASS, utils, ggplot2,
tibble, rlang, stats, coin, ggtree, tidytree, methods, IRanges,
tidyr, patchwork, ggsignif, metagenomeSeq, DESeq2, edgeR,
BiocGenerics, Biostrings, yaml, biomformat, S4Vectors, Biobase,
ComplexHeatmap, ANCOMBC, caret, limma, ALDEx2, multtest,
plotROC, vegan, pROC, BiocParallel
Biostrings, compositions, dplyr, reshape2, Rtsne, scales,
stats, tibble, tidyr, utils, vegan
BiocNeighbors, BiocGenerics, SingleCellExperiment, Matrix (>=
1.3-0), S4Vectors, stats, stringr, methods, igraph, irlba,
cowplot, BiocParallel, BiocSingular, limma, ggplot2, tibble,
matrixStats, ggraph, gtools, SummarizedExperiment, patchwork,
tidyr, dplyr, ggrepel, ggbeeswarm, RColorBrewer, grDevices
assertthat, caret, deldir, digest, distances, dplyr, filelock,
furrr (>= 0.2.0), ggplot2, methods, purrr, ranger, readr,
ridge, rlang, rlist, R.utils, stats, stringr, tibble, tidyr,
utils, withr
methods, stats, utils, grDevices, graphics, BiocGenerics,
GenomicRanges, TFBSTools, Biostrings, IRanges, stabs, BSgenome,
glmnet, S4Vectors, SummarizedExperiment, BiocParallel, grid,
circlize, ComplexHeatmap (>= 2.11.1), XVector, GenomeInfoDb,
tools, vioplot
parallel, igraph (>= 1.0.1), BiocGenerics, HSMMSingleCell (>=
0.101.5), plyr, cluster, combinat, fastICA, grid, irlba (>=
2.0.0), matrixStats, Rtsne, MASS, reshape2, leidenbase (>=
0.1.9), limma, tibble, dplyr, qlcMatrix, pheatmap, stringr,
proxy, slam, viridis, stats, biocViews, RANN(>= 2.5), Rcpp (>=
0.12.0)
ade4, Biostrings, ggplot2, grDevices, graphics, htmlwidgets,
stats, stats4, utils, XML, TFBSTools
methods, grDevices, stringr, parallel, BiocGenerics, S4Vectors
(>= 0.9.25), IRanges, GenomeInfoDb, GenomicRanges, Biostrings,
BSgenome, rtracklayer, VariantAnnotation, BiocParallel,
motifStack, Gviz, matrixStats, TFMPvalue, SummarizedExperiment
plyr, dplyr, dbplyr, magrittr, foreach, parallel, doSNOW,
stringr, mzR, reshape2, fastcluster, ggplot2, DBI, RSQLite
golem, config, R6, shiny, shinydashboard, DT, dplyr, stringr,
anyLib, caret, biosigner, mixOmics, stats, DESeq2,
clusterProfiler, rWikiPathways, ReactomePA, enrichplot, ppcor,
metap, infotheo, igraph, networkD3, easyPubMed, utils,
htmltools, rmarkdown, ggnewscale
RCy3, viridisLite, STRINGdb, Biobase, GOstats, AnnotationDbi,
matrixStats, GO.db, org.Hs.eg.db, Matrix, gplots, nnet,
data.table, vegan, stats, utils, reshape, reshape2, penalized,
parallel, doParallel, foreach, ggplot2, ggdendro, grid, MASS,
assertthat, tidyr, methods, dplyr, graphics
ggplot2, graph, igraph, parallel, plyr, qvalue, RColorBrewer
SpatialExperiment, SingleCellExperiment, SummarizedExperiment,
BRISC, BiocParallel, Matrix, matrixStats, stats
survminer, survival, fastmatch, reshape2, stringr, beeswarm,
grDevices, DT, shiny, shinythemes, shinyWidgets, plotly,
networkD3, httr, matrixStats, RColorBrewer, Biobase, fgsea,
openxlsx, psych, shinybusy, ggseqlogo, htmlwidgets, graphics,
grid, stats, utils, methods, shinyjs, curl, flatxml, ggplot2,
S4Vectors, SummarizedExperiment, RSQLite, Matrix,
shinycssloaders
dplyr, methods, stats, utils, Matrix, jsonlite, homologene,
gprofiler2, babelgene, data.table, parallel, ggplot2, ggpubr,
patchwork, DelayedArray, DelayedMatrixStats, Matrix.utils, grr,
repmis, ggtree, tools
shiny (>= 0.9.1), scales, dplyr, DT (>= 0.1.40), graphics,
utils, ggplot2, shinydashboardPlus (>= 2.0.0), colourpicker,
shinyhelper, shinyWidgets, shinyjs, colorspace, stats,
grDevices, grid, BiocGenerics, shinydashboard
SummarizedExperiment, KEGGREST, igraph, data.table, methods,
stats, magrittr, CompQuadForm, tibble
stats, tidyr, purrr, furrr, tibble, glue, tidygraph, igraph,
proxy, dplyr, magrittr, ggplot2, ggraph, rlang, progress,
Matrix, matrixLaplacian, keras, nloptr, shadowtext, methods,
DOSE, stringr, reticulate
ggplot2, protolite, Biobase, GEOquery, Rook, htmltools,
httpuv, jsonlite, limma, opencpu, assertthat, methods, httr,
rhdf5, utils, parallel, stringr, fgsea (>= 1.9.4), svglite,
gtable, stats, Matrix, pheatmap, scales, ccaPP, grid,
grDevices, AnnotationDbi, DESeq2, data.table, curl
Biobase, stats, dplyr, tidyr, ggplot2, ggrepel, gridExtra,
decoupleR, reshape2
rlang, ggplot2, patchwork, heatmaply, methods, MsCoreUtils,
stats, igraph, VIM, scales, grDevices, graphics
methods, parallel, Matrix (>= 1.4-1), grid, annotate, graph
(>= 1.45.1), Biobase, S4Vectors, BiocParallel, AnnotationDbi,
IRanges, GenomeInfoDb, GenomicRanges, GenomicFeatures, mvtnorm,
qtl, Rgraphviz
phyloseq, ks, reshape2, ggplot2, stats, methods, graphics,
grDevices, matrixStats, Matrix
utils, GenomeInfoDb, data.table, IRanges, GenomicRanges,
parallel, Rsamtools
gplots, biomaRt, org.Hs.eg.db, GO.db, SummarizedExperiment,
AnnotationDbi
car, cowplot, doMC, parallel, dplyr, egg, foreach, ggplot2,
graphics, grDevices, grid, methods, nls2, nnet, rlang,
S4Vectors, scales, stats, stringr, SummarizedExperiment,
tibble, rtracklayer, utils
Biobase, graphics, grDevices, methods, stats,
MultiAssayExperiment, MultiDataSet, SummarizedExperiment, utils
Biostrings, bslib, DT, ggplot2, IRanges, mathjaxr, methods,
patchwork, reshape2, S4Vectors, shiny, shinycssloaders,
shinyFeedback
dplyr, magrittr, rlang, stats, plyr, purrr, BiocParallel,
graphite, Rcpp, tibble, ggplot2, ggraph, igraph, reshape2,
org.Hs.eg.db, SummarizedExperiment, edgeR, methods
igraph, Matrix, BiocGenerics, BiocParallel, BiocNeighbors,
BiocSingular, S4Vectors, SummarizedExperiment,
SingleCellExperiment, scran, scater, scuttle, bluster, methods,
DelayedArray, xgboost, stats, utils, MASS, IRanges,
GenomicRanges, GenomeInfoDb, Rsamtools, rtracklayer
utils, methods, BiocGenerics, S4Vectors, GenomicRanges,
SummarizedExperiment, ExperimentHub (>= 2.3.4), AnnotationHub
(>= 3.3.6), AnnotationDbi, ensembldb, GenomicFeatures
AnnotationDbi, AnnotationFilter, AnnotationHub, BiocParallel,
Biostrings, data.table, digest, DT, ensembldb, fst,
GenomeInfoDb, GenomicFeatures, GenomicRanges, ggplot2,
htmlwidgets, IRanges, Matrix, methods, plotly, rintrojs,
rtracklayer, S4Vectors, scanMiR, scanMiRData, shiny,
shinycssloaders, shinydashboard, shinyjqui, stats, utils,
waiter
Biostrings, GenomicRanges, IRanges, data.table, BiocParallel,
methods, GenomeInfoDb, S4Vectors, ggplot2, stats, stringi,
utils, graphics, grid, ggseqlogo, cowplot
stats, utils, methods, grid, gridExtra, Matrix, BiocGenerics,
S4Vectors, SummarizedExperiment, DelayedArray,
DelayedMatrixStats, beachmat, BiocNeighbors, BiocSingular,
BiocParallel, rlang, ggbeeswarm, viridis, Rtsne, RColorBrewer,
RcppML, ggrepel
methods, Rcpp (>= 0.12.0), RcppParallel (>= 5.0.1), rstantools
(>= 2.1.1), rstan (>= 2.18.1), SeuratObject,
SingleCellExperiment, parallel, dplyr, tidyr, purrr, magrittr,
rlang, tibble, boot, lifecycle, stats, tidyselect, utils,
ggplot2, ggrepel, patchwork, forcats, readr, scales, stringr
S4Vectors, SummarizedExperiment, seriation, ComplexHeatmap,
circlize, methods, randomcoloR, stats, grid, grDevices,
matrixStats
utils, graphics, cvTools (>= 0.3.2), MASS, Matrix, methods,
stats, cluster, matrixStats, fpc, cli, prettyunits, reshape2
(>= 1.4.3), reticulate (>= 1.22), BiocParallel, Biostrings,
grDevices, ggplot2 (>= 3.1.1), ggseqlogo (>= 0.1)
ggplot2, grid, igraph, utils, yulab.utils
cowplot, data.table, eulerr, GenomeInfoDb, GenomicAlignments,
GenomicRanges, ggplotify, grDevices, grid, IRanges, limma,
methods, pbapply, pbmcapply, png, RColorBrewer, Rsamtools,
rtracklayer, S4Vectors, stats, UpSetR
utils, readr, stringr, GenomicRanges, S4Vectors, IRanges,
GenomeInfoDb
graphics, BiocParallel, utils, methods, stringr, readr,
tibble, illuminaio, MASS, wheatmap (>= 0.2.0), GenomicRanges,
IRanges, grid, preprocessCore, S4Vectors, ggplot2,
BiocFileCache, GenomeInfoDb, stats, SummarizedExperiment,
dplyr, reshape2
GOSemSim, ComplexHeatmap (>= 2.7.4), circlize, GetoptLong,
digest, tm, GO.db, org.Hs.eg.db, AnnotationDbi, slam, methods,
clue, grDevices, graphics, stats, utils, proxyC, Matrix,
cluster (>= 1.14.2), colorspace, GlobalOptions (>= 0.1.0)
ape, batchelor, BiocParallel, celldex, colourpicker,
colorspace, cowplot, cluster, ComplexHeatmap, data.table,
DelayedMatrixStats, DESeq2, dplyr, DT, ExperimentHub, fields,
ggplot2, ggplotify, ggrepel, ggtree, gridExtra, GSVA (>=
1.26.0), GSVAdata, igraph, KernSmooth, limma, MAST, Matrix,
matrixStats, methods, msigdbr, multtest, plotly, plyr, ROCR,
Rtsne, S4Vectors, scater, scMerge (>= 1.2.0), scran, Seurat (>=
3.1.3), shiny, shinyjs, SingleR, SoupX, sva, reshape2,
shinyalert, circlize, enrichR, celda, shinycssloaders,
DropletUtils, scds (>= 1.2.0), reticulate (>= 1.14), tools,
tximport, fishpond, withr, GSEABase, R.utils, zinbwave,
scRNAseq (>= 2.0.2), TENxPBMCData, yaml, rmarkdown, magrittr,
scDblFinder, metap, VAM (>= 0.5.3), tibble, rlang, TSCAN,
TrajectoryUtils, generics, scuttle, utils, stats
Biostrings, BiocGenerics, dplyr, GenomicAlignments,IRanges,
methods, reshape2, rlang, Rsamtools, stats, stringr, tidyr,
utils
av, BiocParallel, BiocFileCache, data.table, DESeq2, distinct,
edgeR, WGCNA, flashClust, htmlwidgets, genefilter, ggplot2,
ggdendro, grImport, grid, gridExtra, gplots, igraph, HDF5Array,
limma, methods, magick, Matrix, rsvg, shiny, dynamicTreeCut,
grDevices, graphics, ggplotify, parallel, plotly, pROC, rols,
rappdirs, reshape2, scater, scuttle, scran, stats,
SummarizedExperiment, SingleCellExperiment, shinydashboard,
S4Vectors, utils, visNetwork, UpSetR, xml2, yaml
shiny, golem, ggplot2, cowplot, plotly, viridisLite,
shinyWidgets, sessioninfo, grid, grDevices, methods,
AnnotationHub, utils, png, scater, DT, ExperimentHub,
RColorBrewer, SummarizedExperiment, stats, graphics, S4Vectors,
IRanges, fields, benchmarkme, SingleCellExperiment,
BiocFileCache, jsonlite, tibble, rtracklayer, Matrix,
BiocGenerics, GenomicRanges, magick, paletteer
dplyr, SpatialExperiment (>= 1.5.2), SummarizedExperiment,
SingleCellExperiment, edgeR, rlang, readr, tibble, ggplot2,
tidyr, ruv, limma, patchwork, S4Vectors, Biobase, BiocGenerics,
grDevices, stats, methods, mclustcomp
assertthat, stringr, dplyr, methods, rlang, GenomeInfoDb,
S4Vectors, GenomicFeatures
RColorBrewer, lattice, qvalue, multtest, utils, tools,
Biobase, Biostrings, cleaver (>= 1.3.3), readr (>= 0.2),
rmarkdown (>= 1.0)
methods, Biostrings, BiocGenerics, jsonlite, remotes
BiocFileCache, dplyr, GenomicRanges, methods,
RaggedExperiment, readr, S4Vectors, stats, tidyr, TCGAutils,
utils
SummarizedExperiment, dplyr, tibble, tidyr, ggplot2, plotly,
magrittr, rlang, purrr, lifecycle, methods, utils, S4Vectors,
tidyselect, ellipsis, vctrs, pillar, stringr, cli, fansi
tibble (>= 3.0.4), dplyr, magrittr, tidyr, ggplot2, rlang,
purrr, lifecycle, methods, plotly, utils, S4Vectors,
tidyselect, ellipsis, vctrs, pillar, stringr, cli, fansi
grDevices, graphics, animation, tibble, dplyr, stringr, purrr,
methods, shiny, BiocFileCache, readr, tools
grDevices, stats, tools, utils, Biobase, Matrix (>= 1.2.10),
MSnbase (>= 2.3.10), ggplot2 (>= 2.2.1), mzR (>= 2.27.5)
glmGamPoi, DelayedArray, Matrix, MatrixGenerics,
SummarizedExperiment, HDF5Array, methods, utils, Rcpp
ape, dplyr, jsonlite, magrittr, methods, rlang, tibble,
tidytree (>= 0.3.9), utils
RSQLite, RMySQL, lassopv, randomForest, xgboost, RPostgreSQL,
methods, DBI, BSgenome, BSgenome.Hsapiens.UCSC.hg38,
BSgenome.Hsapiens.UCSC.hg19, BSgenome.Mmusculus.UCSC.mm10,
SNPlocs.Hsapiens.dbSNP150.GRCh38, org.Hs.eg.db, Biostrings,
GenomicRanges, biomaRt, AnnotationDbi, WGCNA
methods, circular, ggplot2, ggnewscale, AnnotationDbi, scater,
GenomicRanges, IRanges, S4Vectors, scattermore, dplyr,
RColorBrewer, grDevices, stats, SummarizedExperiment, utils
markdown, shiny, shinyjs, shinyBS,
shinyWidgets,shinycssloaders, DT, Gviz, Homo.sapiens, openxlsx,
condformat, stringr, org.Hs.eg.db,
TxDb.Hsapiens.UCSC.hg38.knownGene, BiocFileCache,rappdirs,
TxDb.Hsapiens.UCSC.hg19.knownGene, rlist, utils,S4Vectors,
EnsDb.Hsapiens.v75, EnsDb.Hsapiens.v86, OrganismDbi,
BSgenome.Hsapiens.UCSC.hg19, BSgenome.Hsapiens.UCSC.hg38,
processx, Rsamtools, GenomicRanges
mia, stats, CVXR, DescTools, Hmisc, MASS, Rdpack, S4Vectors,
SingleCellExperiment, SummarizedExperiment,
TreeSummarizedExperiment, doParallel, doRNG, dplyr, emmeans,
energy, foreach, lme4, lmerTest, magrittr, nloptr, parallel,
rlang, rngtools, tibble, tidyr, utils
gtools, GenomicRanges, projectR, TFBSTools, GeneOverlap,
msigdbr, tidyverse, gplots, motifmatchr, chromVAR,
GenomicFeatures, IRanges, fgsea, rGREAT, JASPAR2016,
Homo.sapiens, Mus.musculus, BSgenome.Hsapiens.UCSC.hg19,
BSgenome.Mmusculus.UCSC.mm10, stringr, dplyr
BiocGenerics, S4Vectors, IRanges, Matrix, GenomicRanges,
GenomicAlignments, GenomeInfoDb, SummarizedExperiment,
Rsamtools, motifmatchr, TFBSTools, stats, pracma, ggplot2,
ggrepel, dplyr, limma, methods
stats, utils, methods, futile.logger, jsonlite, httr,
rapiclient (>= 0.1.3), tibble, tidyselect, tidyr, rlang, shiny,
DT, miniUI, htmltools, BiocManager
Biobase, BiocGenerics, coda, cowplot, ggExtra, ggplot2,
graphics, grDevices, MASS, methods, Rcpp (>= 0.11.3),
S4Vectors, scran, scuttle, stats, stats4, SummarizedExperiment,
viridis, utils, Matrix (>= 1.5.0), matrixStats, assertthat,
reshape2, BiocParallel, hexbin
methods, glmGamPoi, scran, scuttle, stats, utils,
SingleCellExperiment, SummarizedExperiment, Rcpp (>= 0.12.0),
RcppParallel (>= 5.0.1), rstantools (>= 2.1.1)
tidyr, tibble, dplyr, plyr, matrixStats, stats, ggplot2,
methods, rtracklayer, S4Vectors, ggforce, GenomeInfoDb, Gviz
stringr, synaptome.db, clusterCons, fgsea, grid, methods,
scales, AnnotationDbi, dplyr, GO.db, org.Hs.eg.db, rSpectral,
WGCNA, ggplot2, ggrepel
DT, shiny, jsonlite, graph, tidyr, visNetwork, igraph, utils,
methods, BiocBaseUtils
BiocFileCache, BiocManager, biocViews, tibble, magrittr,
methods, rlang, stringr, rvest, dplyr, xml2, readr, httr,
htmltools, DT, tools, utils, igraph, jsonlite, gh, RBGL, graph,
rorcid
dplyr, methods, grDevices, Matrix, ggplot2, ggrepel, stats,
parallel, tibble, tidyr, irlba, ComplexHeatmap, circlize, grid,
scales, utils, rlang, Rfast
stats, pscl, qvalue, BiocParallel, methods, knitr,
SpatialExperiment, SummarizedExperiment
Biobase, irlba, Matrix, matter, magrittr, mclust, nlme,
parallel, signal, sp, stats4, utils, viridisLite
methods, stats, Rcpp (>= 1.0.5), data.table (>= 1.12.6), plyr,
ggplot2, stringr, magrittr, ShortRead (>= 1.48.0), Biostrings
(>= 2.58.0), egg, Ckmeans.1d.dp, utils, S4Vectors, seqinr,
zlibbioc
dplyr, tibble, stringr, Biostrings, Rcpp, reshape2, methods,
rlang (>= 0.3), purrr, Matrix, S4Vectors, BiocGenerics, tidyr,
forcats, progress, stats, utils, generics, glue
shiny, colourpicker, shinyjs, rtracklayer, shinyFiles,
shinyhelper, shinyWidgets, shinydashboardPlus, shinycssloaders,
Matrix, plotly, shinydashboard, colorRamps, kableExtra,
viridis, batchelor, BiocParallel, parallel, Rsamtools, ggplot2,
ggrepel, gggenes, gridExtra, qualV, stringdist, stringr, fs,
qs, DT, scran, scater, ConsensusClusterPlus, Rtsne, dplyr,
tidyr, GenomicRanges, IRanges, irlba, rlist, umap, tibble,
methods, jsonlite, edgeR, stats, graphics, grDevices, utils,
S4Vectors, SingleCellExperiment, SummarizedExperiment, msigdbr,
forcats, Rcpp, coop, matrixTests, DelayedArray
stats, tools, utils, methods, S4Vectors, rlang, magrittr,
dplyr, tidyr, ggplot2, BiocGenerics, Biostrings, IRanges,
ShortRead, Rsamtools, Rbowtie2, Rhisat2
grid, genefilter, utils, dplyr, tidyr, rlang, ranger
cytolib(>= 2.3.10), flowCore (>= 1.99.10), flowWorkspace (>=
4.1.8), openCyto (>= 1.99.2), XML, data.table, jsonlite, RBGL,
Rgraphviz, Biobase, methods, graph, graphics, utils, jsonlite,
dplyr, grDevices, ggcyto (>= 1.11.4), yaml, stats,
tibble
Biobase, MSnbase, DAPARdata (>= 1.28.0), utils, highcharter,
foreach
utils, methods, Biobase, BiocGenerics, broom, circlize,
ComplexHeatmap, cowplot, ConsensusClusterPlus, cluster, DESeq2,
dplyr, edgeR, ggplot2, ggdendro, grid, ggrepel, grDevices,
knitr, logging, magrittr, psych, RColorBrewer, reshape, rlang,
scales, stats, stringr, S4Vectors, SummarizedExperiment, tidyr,
tibble
BiocGenerics (>= 0.7.5), Biobase, BiocParallel, matrixStats,
methods, stats4, locfit, geneplotter, ggplot2, Rcpp (>= 0.11.0)
bamsignals, GenomicRanges, IRanges, Rsamtools,
GenomicAlignments, BiocBaseUtils, S4Vectors
AnnotationDbi, HDO.db, BiocParallel, fgsea, ggplot2, GOSemSim
(>= 2.23.1), methods, qvalue, reshape2, stats, utils
RColorBrewer, amap, gplots, grDevices, limma,
GenomicAlignments, locfit, stats, utils, IRanges, lattice,
systemPipeR, tools, Rcpp, dplyr, ggplot2, BiocParallel,
parallel, S4Vectors, Rsamtools (>= 2.13.1), DESeq2, methods,
graphics, ggrepel, apeglm, ashr, GreyListChIP
clusterProfiler, dplyr, forcats, ggplot2, magrittr, rlang,
stats, org.Hs.eg.db, org.Mm.eg.db, AnnotationDbi
AnnotationHub, BRGenomics, ChIPseeker, data.table, genomation,
GenomicRanges, IRanges, GenomeInfoDb, ggplot2, htmltools,
methods, plotly, reshape2, rmarkdown, rtracklayer, stats,
stringr, utils, BiocGenerics
AnnotationHub, AnnotationDbi, Biobase, biomaRt, data.table,
doParallel, doSNOW, downloader, dplyr, ELMER.data,
ExperimentHub, foreach, GenomeInfoDb, GenomicFeatures,
GenomicRanges, GEOquery, ggplot2, graphics, grDevices, impute,
IRanges, limma, methods, parallel, plyr, progress, R.matlab,
RColorBrewer, RCurl, rlang, RPMM, S4Vectors, stats,
SummarizedExperiment, tibble, tidyr, utils
basilisk, reticulate, SingleCellExperiment,
SummarizedExperiment, MultiAssayExperiment, Rsamtools, utils,
zlibbioc, scater, dplyr, tidyr, magrittr, S4Vectors, scuttle,
stats, rtracklayer, igraph, ggbio, GenomicRanges, Matrix,
BiocGenerics, ggplot2, scran, ComplexHeatmap, RColorBrewer,
circlize, grid, gridExtra, cowplot, stringr, bambu,
GenomeInfoDb, withr, Biostrings, GenomicFeatures, jsonlite,
parallel, DropletUtils
stats, utils, colorRamps, ConsensusClusterPlus, dplyr,
flowCore, ggforce, ggnewscale, ggplot2, ggpubr, grDevices,
magrittr, methods, rlang, Rtsne, tidyr, BiocGenerics, XML
psych, FCPS, analogue, coop, pheatmap, ggplotify, fastcluster,
fpc, ggplot2, stringr, ggpubr, proxy, cluster, diptest,
methods, SummarizedExperiment, stats, S4Vectors
futile.logger, checkmate, patchwork, reshape2, data.table,
matrixStats, Matrix, GenomicRanges, RColorBrewer,
ComplexHeatmap, DESeq2, circlize, progress, utils, methods,
stringr, scales, igraph, S4Vectors, ggplot2, rlang, Biostrings,
GenomeInfoDb, SummarizedExperiment, forcats, gridExtra, limma,
tidyselect, readr, grid, tidyr, dplyr, stats, grDevices,
graphics, magrittr, tibble, viridis, colorspace, biomaRt
Biostrings, CRISPRseek, ChIPpeakAnno, data.table, matrixStats,
BSgenome, parallel, IRanges (>= 2.5.5), S4Vectors (>= 0.9.6),
stringr, multtest, GenomicAlignments (>= 1.7.3), GenomeInfoDb,
Rsamtools, hash, limma,dplyr, GenomicFeatures, rio, tidyr,
tools, methods, purrr, ggplot2, openxlsx, patchwork, rlang
AnnotationDbi, biomaRt (>= 2.45.8), BiocGenerics, Biostrings,
DBI, GenomicFeatures, GenomicRanges (>= 1.25.4), ggplot2 (>=
2.1.0), gridExtra (>= 2.0.0), gtable, gtools, IRanges (>=
2.7.5), plyr (>= 1.8.3), reshape2, Rsamtools, scales, viridis,
data.table, BSgenome, GenomeInfoDb, VariantAnnotation
Biostrings, BiocGenerics, BiocParallel, GenomeInfoDb,
GenomicRanges, IRanges, dplyr, data.table, parallel,
doParallel, foreach, methods, S4Vectors, stats, numbers,
ComplexHeatmap, ggplot2, methods, S4Vectors, Biobase, ggpubr,
dplyr, plotly, BiocFileCache, grid, flextable, irlba
methods, zlibbioc, ggplot2, Rcpp (>= 0.12.8), stats,
S4Vectors, gtools, pbapply, BiocParallel, BiocGenerics, rhdf5,
grid, ggpubr, gridExtra, ggExtra, data.table, multiHiCcompare,
GenomeInfoDb
HiContactsData, InteractionSet, GenomicInteractions,
GenomicRanges, IRanges, GenomeInfoDb, S4Vectors, BiocGenerics,
methods, rhdf5, Matrix, vroom, tibble, tidyr, dplyr, glue,
stringr, reticulate, ggplot2, ggrastr, scales
utils, dplyr, readr, tidyr, purrr, rlang, tibble, stringr, fs,
lubridate, lifecycle, ggplot2, ggrepel, stats, psych,
data.table, readxl, tools, Rcapture, grDevices, forcats, glue,
shiny, shinyWidgets, datamods, bslib
methods, reshape2 (>= 1.4.3), Rcpp (>= 0.12.0), RcppParallel
(>= 5.0.1), rstan (>= 2.18.1), rstantools (>= 2.2.0),
SummarizedExperiment
curl, igraph, foreach, doParallel, sortable, dplyr, data.tree,
graphics, grDevices, parallel, RColorBrewer, Rfast, stats,
SummarizedExperiment, utils, purrr, stringi, stringr, Matrix,
tidyr, jsonlite, readr, configr, DT, tools, fs, data.table,
htmltools, htmlwidgets, bsplus, shinyvalidate, shiny,
shinythemes, shinyFiles, shinyjs, shinyBS, shinydashboard,
biomaRt, callr, logr
gdata, pls, sfsmisc, MASS, rpart, genefilter, fpc, ggvis,
shiny, gbm, RColorBrewer, hwriter, threejs (>= 0.2.2), mlbench,
stats4, tools, grDevices, graphics, stats, magrittr,
SummarizedExperiment
shiny, shinyBS, shinyjs, shinybusy, dplyr, ggplot2,
data.table, Hmisc, MSstats, MSstatsTMT, MSstatsPTM,
MSstatsConvert, gplots, marray, DT, ggrepel, uuid, utils,
stats, htmltools, methods, tidyr, grDevices, graphics
grDevices, AnnotationHub, BumpyMatrix, ExperimentHub,
S4Vectors, SummarizedExperiment
utils, ggplot2, ggrepel, stringr, pheatmap, grDevices, stats,
clusterProfiler, RecordLinkage, RCy3
BiocGenerics, MsCoreUtils, MetaboCoreUtils, ProtGenerics,
methods, S4Vectors, Spectra (>= 1.7.2), BiocParallel,
SummarizedExperiment, QFeatures, graphics, CompoundDb
BiocFileCache, tools, S4Vectors, ape, utils
ape, tidyr, ggplot2, magrittr, dplyr, Biostrings, ggrepel,
vegan, zoo, ggtree, tidytree (>= 0.3.9), MASS, methods, rlang,
tibble, grDevices, stats, utils, coin, ggsignif, patchwork,
ggstar, tidyselect, SummarizedExperiment, foreach, treeio (>=
1.17.2), pillar, plyr, dtplyr, ggtreeExtra, data.table
methods, S4Vectors, IRanges, Spectra, SummarizedExperiment,
QFeatures
methods, GenomicRanges (>= 1.25.93), BiocBaseUtils,
BiocGenerics, DelayedArray, S4Vectors (>= 0.23.19), IRanges,
Biobase, stats, tidyr, utils
magrittr, data.table, utils, R.utils, dplyr, stats,
GenomicRanges, IRanges, GenomeInfoDb, BSgenome, Biostrings,
stringr, VariantAnnotation, googleAuthR, httr, jsonlite,
methods, parallel, rtracklayer, RCurl
cpp11 (>= 0.2.5), readr, S4Vectors, SummarizedExperiment,
BiocSingular, bsseq, forcats, assertthat, AnnotationDbi, Rcpp,
dplyr, data.table, e1071, fs, GenomicRanges, ggrastr, glue,
graphics, limma (>= 3.44.0), patchwork, purrr, rlang, R.utils,
RSQLite, Rsamtools, scales (>= 1.2.0), scico, stats, stringr,
tibble, tidyr, utils, withr, zlibbioc
airway, DelayedArray, DelayedMatrixStats, DESeq2, methods,
methods, NetActivityData, SummarizedExperiment, utils
KEGGREST,png,dplyr,graphics,RSQLite,DBI,tidyr,grDevices,stringr,GenomeInfoDb,
S4Vectors,SummarizedExperiment,reactome.db,rWikiPathways,RCurl,
dbplyr,utils,ggplot2,igraph,stats,reshape2,readr,
GO.db,zlibbioc,
biomaRt,rtracklayer,IRanges,GenomicRanges,GenomicFeatures,AnnotationDbi
multtest (>= 1.7.3), graphics, grDevices, stats, interp
checkmate, crayon, curl, digest, dplyr, httr, igraph,
jsonlite, later, logger, magrittr, progress, purrr, rappdirs,
readr(>= 2.0.0), readxl, rlang, rmarkdown, rvest, stats,
stringr, tibble, tidyr, tidyselect, tools, utils, withr, xml2,
yaml
broom, caret, ComplexHeatmap, dbscan, dplyr, DESeq2, ggplot2,
ggrepel, glasso (>= 1.11), glmnet, impute, limma, magrittr,
mixOmics, randomForest, RankProd (>= 3.14), rmarkdown,
SummarizedExperiment, tibble, tidyr, uwot, vegan
tidyr, stringr, dplyr, tibble, magrittr, futile.logger, utils,
easycsv, rentrez, igraph, RColorBrewer, data.table, colorspace,
grDevices, rlang, methods
DAPAR (>= 1.30.2), DAPARdata (>= 1.28.0), rhandsontable,
data.table, shiny, shinyBS, shinyAce, highcharter, htmlwidgets,
webshot, shinythemes, later, shinycssloaders, future, promises,
shinyjqui, tibble, ggplot2, gplots, shinyjs, vioplot
methods, stats, utils, S4Vectors, IRanges,
SummarizedExperiment, BiocGenerics, ProtGenerics (>= 1.27.1),
AnnotationFilter, lazyeval, Biobase, MsCoreUtils (>= 1.7.2),
igraph, plotly
methods, grDevices, graphics, utils, stats, tools,
BiocGenerics, S4Vectors, IRanges, Biobase, Biostrings,
BSgenome, Rsamtools (>= 2.13.1), GenomicFeatures, ShortRead,
BiocParallel, GenomeInfoDb, rtracklayer, GenomicFiles,
AnnotationDbi
httr, methods, RJSONIO, XML, utils, BiocGenerics, stats,
graph, fs, uuid, uchardet, glue, RCurl, base64url, base64enc,
IRkernel, IRdisplay, RColorBrewer, gplots
Biostrings, BSgenome, BSgenome.Hsapiens.1000genomes.hs37d5,
cluster, data.table, GenomeInfoDb, GenomicRanges, glmnet,
ggplot2, gridExtra, IRanges, lsa, nnls, parallel, reshape2
BiocGenerics, data.table, DelayedArray, GenomicRanges,
GenomeInfoDb, httr, limma, methods, RaggedExperiment, RCircos,
RCurl, RJSONIO, rvest, S4Vectors (>= 0.23.10), stats, stringr,
SummarizedExperiment, survival, TCGAutils (>= 1.9.4), XML
XML, RCurl, assertthat, stringi, rvest, data.table, xml2,
dplyr, purrr, survival, survminer, ggplot2, ggthemes, viridis,
knitr, scales, rmarkdown, htmltools
BiocGenerics, GenomeInfoDb, IRanges, Matrix, MatrixGenerics,
methods, S4Vectors, stats, SummarizedExperiment, utils
AnnotationDbi, DOSE (>= 3.5.1), enrichplot, ggplot2 (>=
3.3.5), ggraph, reactome.db, igraph, graphite, gson
GenomeInfoDb, GenomicFeatures, GenomicRanges, ggplot2,
graphics, IRanges, methods, regioneR, S4Vectors, stats,
TxDb.Hsapiens.UCSC.hg19.knownGene
matrixStats, BiocParallel, torch (>= 0.3.0), coro, igraph,
Matrix, cluster, clusterCrit, psych, glmnet, RhpcBLASctl,
stats, utils, methods, survival
BiocParallel, Matrix, DESeq2, S4Vectors, data.table, edgeR,
openxlsx, pheatmap, stats, circlize, methods, sva
apcluster (>= 1.4.7), ggplot2 (>= 3.2.1), gridExtra (>= 2.3),
gtools (>= 3.8.1), reshape2 (>= 1.4.3), dplyr (>= 0.8.3),
plotly (>= 4.9.0), RANN (>= 2.6.1), pracma (>= 2.2.5), dbscan
(>= 1.1-5), mmand (>= 1.5.4), tibble (>= 2.1.3), grDevices,
stats, utils, vroom, ComplexHeatmap, dittoSeq, spatstat.geom,
alphahull, methods, spatstat.explore, raster, sp, xROI, elsa,
Rtsne, umap, rlang, graphics, SummarizedExperiment
stats, utils, graphics, ggplot2, BiocParallel
basilisk, BiocParallel, data.table, dplyr, ggplot2, tools,
Matrix (>= 1.3.3), methods, phyloseq, proxyC, RColorBrewer,
RCurl, reticulate, sparseMatrixStats, SummarizedExperiment,
tidyr
methods, Matrix, S4Vectors, DelayedArray, DelayedMatrixStats,
BiocParallel, BiocSingular, stats, utils, Rcpp, beachmat,
parallel
grDevices, stats, utils, graphics, SeuratObject, Biobase,
GeomxTools, repmis, methods, Matrix, logNormReg (>= 0.4)
BiocGenerics, BiocParallel, methods, rjson, S4Vectors, sf,
SingleCellExperiment, SpatialExperiment, spdep (>= 1.1-7),
SummarizedExperiment, stats, utils
ompBAM, methods, stats, utils, tools, parallel, magrittr, Rcpp
(>= 1.0.5), data.table, fst, ggplot2, AnnotationHub,
BiocFileCache, BiocGenerics, BiocParallel, Biostrings,
BSgenome, DelayedArray, DelayedMatrixStats, genefilter,
GenomeInfoDb, GenomicRanges, HDF5Array, IRanges, progress,
plotly, R.utils, rhdf5, rtracklayer, SummarizedExperiment,
S4Vectors, shiny, shinyFiles, shinyWidgets, shinydashboard,
rhandsontable, DT, grDevices, heatmaply, pheatmap, matrixStats,
RColorBrewer, XML
stats, methods, utils, dplyr, S4Vectors, SummarizedExperiment,
SpatialExperiment, Matrix, rhdf5, ggplot2, grid, readbitmap,
rjson, tibble, viridis, grDevices, RColorBrewer, Seurat, rlang
BiocParallel, spatstat.geom, concaveman, tidyverse,
data.table, spatstat.explore, dplyr, tidyr,
SingleCellExperiment, tibble, stringr, tidyselect, ggplot2,
methods, stats
BiocBaseUtils, BiocGenerics, BiocIO, GenomeInfoDb,
GenomicRanges, Matrix, MatrixGenerics, methods, RCurl, readr,
R.utils, S4Vectors, utils
ggplot2, ggpubr, methods, miniUI, mzID, mzR, shiny, stats
methods, data.table(>= 1.13.6), Matrix, BiocParallel,
BiocNeighbors, SingleCellExperiment, SummarizedExperiment
AnnotationDbi, BiocFileCache, BiocBaseUtils, rjsoncons,
jsonlite, httr, httpcache, progress
stringr, R.utils, WriteXLS, stats, doParallel, foreach,
GenomicRanges, IRanges, VariantAnnotation, data.table
basilisk, BiocParallel, cowplot, ggplot2, gridExtra, IRanges,
Matrix, methods, RColorBrewer, reticulate, S4Vectors,
SingleCellExperiment, stats, SummarizedExperiment, utils
BiocParallel, bluster, ggnewscale, ggplot2, Matrix, methods,
patchwork, rlang, S4Vectors, scales, scico, sf,
SingleCellExperiment, SpatialExperiment,
SpatialFeatureExperiment, spdep, stats, SummarizedExperiment
methods, stats, Matrix, BiocGenerics, BiocParallel, S4Vectors,
IRanges, GenomicRanges, GenomicAlignments, Rsamtools,
GenomeInfoDb, SQUAREM, sparseMatrixStats, AnnotationHub,
scales, matrixStats
stats, stats4, utils, methods, phyloseq,
TreeSummarizedExperiment, BiocParallel, zinbwave, edgeR,
DESeq2, limma, ALDEx2, SummarizedExperiment, MAST, Seurat,
ANCOMBC, NOISeq, dearseq, metagenomeSeq, corncob, MGLM,
ggplot2, RColorBrewer, plyr, reshape2, ggdendro, ggridges,
graphics, cowplot, tidytext
combinat, GenomeInfoDb, GenomicRanges, ggplot2, ggtree,
Matrix, matrixStats, methods, pheatmap, snpStats, S4Vectors,
utils, VariantAnnotation, vcfR
Rcpp, matrixStats, stats, SIMLR, BiocParallel
httr, curl, jsonlite, utils, tools, shiny, DT, rjsoncons
tibble, GenomicAlignments, IRanges, plyranges, GenomeInfoDb,
GenomicRanges, BiocGenerics, stats, utils, dplyr (>= 0.8.3),
stringr (>= 1.4.0), quantmod (>= 0.4), ggplot2 (>= 3.2.1),
Rsamtools (>= 2.4.0), rlang (>= 0.4.0)
AnnotationDbi, downloader, DOSE (>= 3.23.2), dplyr, enrichplot
(>= 1.9.3), GO.db, GOSemSim, gson (>= 0.0.7), magrittr,
methods, plyr, qvalue, rlang, stats, tidyr, utils, yulab.utils
hash,grDevices, gridExtra, rtracklayer, IRanges, S4Vectors,
GenomicRanges, stats, corrplot
utils, graphics, stats, methods, reshape2, ggplot2, ggtree,
patchwork, igraph, Biostrings
fastICA (>= 1.2.1), sm, org.Hs.eg.db, GO.db, stats,
SummarizedExperiment, BiocParallel, graph, methods, pheatmap,
survival, topGO, graphics, grDevices
rmarkdown (>= 2.5), edgeR, DESeq2 (>= 1.16.0), dplyr, tidyr,
ggplot2, grDevices, tools, SummarizedExperiment, genefilter,
DT, GenomeInfoDbData, caTools, randtests, stats, utils,
methods, ragg
BiocGenerics, Biostrings, GenomicRanges, graphics, IRanges,
S4Vectors, stringr
AnnotationDbi, BiocGenerics, Biostrings, BSgenome,
crisprBowtie (>= 0.99.8), crisprScore (>= 1.1.6), GenomeInfoDb,
GenomicFeatures, GenomicRanges (>= 1.38.0), IRanges, Matrix,
MatrixGenerics, methods, rtracklayer, S4Vectors, stats, utils,
VariantAnnotation
basilisk (>= 1.9.2), basilisk.utils (>= 1.9.1), BiocGenerics,
Biostrings, IRanges, methods, randomForest, reticulate,
stringr, utils, XVector
BiocManager, cli, crisprBase, crisprBowtie, crisprScore,
crisprDesign, crisprViz, rlang, tools, utils
BiocGenerics, Biostrings, BSgenome, GenomeInfoDb,
GenomicFeatures, GenomicRanges, grDevices, Gviz, IRanges,
methods, S4Vectors
SpatialExperiment, S4Vectors, BiocParallel, HDF5Array,
DelayedArray, RColorBrewer, viridis, utils,
SummarizedExperiment, tools, graphics, raster, grDevices,
stats, ggplot2, ggbeeswarm, svgPanZoom, svglite, shiny,
shinydashboard, matrixStats, rhdf5, nnls
pheatmap, Biostrings, UniProt.ws, BiocGenerics, utils,
biomaRt, motifStack, httr
CompQuadForm, dplyr, ggplot2, KernSmooth, magrittr,
matrixStats, methods, patchwork, parallel, pbapply, reshape2,
rlang, scattermore, stats, statmod, survey, tibble, viridisLite
stats, MASS, Matrix, ggplot2, gridExtra, methods
Rcpp, basilisk, assertthat, reticulate, irlba
aplot (>= 0.1.4), DOSE (>= 3.16.0), ggnewscale, ggplot2,
ggraph, graphics, grid, igraph, methods, plyr, purrr,
RColorBrewer, reshape2, rlang, stats, utils, scatterpie,
shadowtext, GOSemSim, magrittr, ggtree, yulab.utils (>= 0.0.4)
minfi, bumphunter, isotree, robustbase, ggplot2,
GenomicRanges, GenomicFeatures, IRanges, SummarizedExperiment,
stats, matrixStats, BiocGenerics, S4Vectors, utils, biomaRt,
BiocParallel, GenomeInfoDb, Homo.sapiens, purrr, tibble, Gviz,
TxDb.Hsapiens.UCSC.hg19.knownGene,
TxDb.Hsapiens.UCSC.hg18.knownGene,
TxDb.Hsapiens.UCSC.hg38.knownGene, rtracklayer, AnnotationDbi,
AnnotationHub, ExperimentHub, reshape2, grid, ensembldb,
gridExtra, IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylationEPICmanifest,
IlluminaHumanMethylation450kanno.ilmn12.hg19,
IlluminaHumanMethylationEPICanno.ilm10b2.hg19, ggrepel
BiocParallel, data.table, matrixStats, stats, survival,
igraph, batchtools, qgraph, grDevices, parallel, Rcpp (>=
0.11.0), ggplot2, grid, graphics, utils
methods, graphics, grDevices, stats, BiocGenerics, S4Vectors,
IRanges
Rcpp, data.table, BiocParallel, stats, ggplot2 (>= 2.2.0),
cowplot, grid, fastmatch, Matrix, utils
graphics, stats, utils, methods, abind, gtools, qvalue,
S4Vectors, IRanges, SummarizedExperiment, GenomicRanges,
matrixStats, svMisc, Matrix, SingleCellExperiment, jsonlite
Biobase, BiocGenerics, cytolib (>= 2.3.9), XML, ggplot2,
graph, graphics, grDevices, methods, stats, stats4, utils,
RBGL, tools, Rgraphviz, data.table, dplyr, scales, matrixStats,
RProtoBufLib, flowCore(>= 2.1.1), ncdfFlow(>= 2.25.4),
DelayedArray, S4Vectors
magrittr, glue, memoise, jsonlite, data.table, rlang,
lubridate, utils, stringr, SummarizedExperiment, Biobase,
tibble, tidyr, S4Vectors, httr, rappdirs, bit64
ggplot2, utils, rlang, ggnewscale, stats, ggtree, tidytree (>=
0.3.9), cli
ape, aplot, dplyr, ggplot2 (> 3.3.6), grid, magrittr, methods,
purrr, rlang, ggfun (>= 0.0.6), yulab.utils, tidyr, tidytree
(>= 0.3.9), treeio (>= 1.8.0), utils, scales, stats, cli
Rcpp, DelayedMatrixStats, matrixStats, MatrixGenerics,
DelayedArray, HDF5Array, SummarizedExperiment,
SingleCellExperiment, BiocGenerics, methods, stats, utils,
splines, rlang
GO.db, org.Hs.eg.db, goProfiles, stats, clusterProfiler,
parallel
AnnotationDbi, graph (>= 1.67.1), httr, rappdirs, stats,
utils, graphics, rlang, purrr
rhdf5, reshape, S4Vectors, IRanges, Biostrings, Rsamtools (>=
2.13.1), methods, GenomicRanges, abind, BiocParallel,
BatchJobs, h5vcData, GenomeInfoDb
httr, jsonlite, dplyr, tibble, tidyr, readr, BiocFileCache,
tools, utils, digest, shiny, miniUI, DT
AnnotationHub, BiocManager, DT, iSEE, methods, rintrojs,
S4Vectors, shiny, shinydashboard, shinyjs, utils
methods, BiocGenerics, httpuv, utils, rtracklayer,
VariantAnnotation, RColorBrewer, httr
S4Vectors, stats, utils, SummarizedExperiment, methods,
pheatmap, scuttle, stringr, readr, EBImage, cytomapper, abind,
BiocParallel, viridis, dplyr, magrittr, DT, igraph,
SingleCellExperiment, vroom, BiocNeighbors, RTriangle, ggraph,
tidygraph, ggplot2, data.table, sf, concaveman, tidyselect,
distances, MatrixGenerics
graphics, grDevices, RColorBrewer, gplots, futile.logger,
stats, utils, methods, ape, phyclust, Matrix, fastcluster,
parallelDist, dplyr, HiddenMarkov, ggplot2, edgeR, coin,
caTools, digest, RANN, igraph, reshape2, rjags, fitdistrplus,
future, foreach, doParallel, Seurat, BiocGenerics,
SummarizedExperiment, SingleCellExperiment, tidyr, parallel,
coda, gridExtra, argparse
methods, stats, Rcpp (>= 0.11.2), Matrix (>= 1.5-0), XVector
(>= 0.7.3), S4Vectors (>= 0.27.3), e1071, LiblineaR, graphics,
grDevices, utils, apcluster
ggplot2, class, concaveman, grid, BiocParallel,
spatstat.explore, spatstat.geom, BiocGenerics, S4Vectors,
methods, spicyR, purrr, stats, data.table, dplyr, tidyr,
SingleCellExperiment, SpatialExperiment, SummarizedExperiment,
pheatmap
BiocGenerics, ProtGenerics, digest, irlba, biglm, utils
corpcor, SPONGE, parallel, igraph, MCL, clusterProfiler,
ReactomePA, DOSE, survival, grDevices, graphics, stats,
linkcomm, utils, Rcpp, org.Hs.eg.db, foreach, doParallel
assertthat, caret, deldir, digest, distances, dplyr, filelock,
furrr (>= 0.2.0), ggplot2, methods, purrr, ranger, readr,
ridge, rlang, rlist, R.utils, stats, stringr, tibble, tidyr,
tidyselect, utils, withr
doRNG, fmsb, foreach, magrittr, org.Hs.eg.db, pROC,
randomForest, RankProd, stats, utils
stats, methods, lme4, purrr, BiocParallel, Matrix, MASS,
limma, SummarizedExperiment, MultiAssayExperiment, codetools
Biostrings, checkmate, dplyr (>= 1.0.0), DT, forcats,
ggdendro, grDevices (>= 3.6.0), grid, lifecycle, lubridate,
methods, pander, plotly (>= 4.9.4), readr, reshape2, rlang,
rmarkdown, scales, stats, stringr, tidyr, tidyselect (>=
0.2.3), utils, zoo
SpatialExperiment, SingleCellExperiment, SummarizedExperiment,
BRISC, BiocParallel, Matrix, matrixStats, stats, methods
EDASeq, GSVA, data.table, htmlwidgets, plotly, reshape2,
grDevices, utils
Biobase, S4Vectors, methods, stats, utils, BiocFileCache,
shiny, graph, Rgraphviz, ontologyPlot, dplyr, magrittr, DT,
igraph, AnnotationHub, SummarizedExperiment
methods,Biobase,BiocGenerics,flowCore(>=
1.99.17),flowViz,ncdfFlow(>= 2.11.34),flowWorkspace(>=
3.99.1),flowClust(>= 3.11.4),RBGL,graph,data.table,RColorBrewer
dplyr, methods, stats, utils, Matrix, jsonlite, homologene,
gprofiler2, babelgene, data.table, parallel, ggplot2, ggpubr,
patchwork, DelayedArray, grr, repmis, ggtree, tools
Biobase, biodb, biodbChebi, data.table, futile.logger,
ggplot2, ggrepel, graphics, grDevices, grid, htmlwidgets,
igraph, limma, methods, MultiAssayExperiment, MultiDataSet,
PMCMRplus, plotly, ranger, RColorBrewer, ropls, stats, tibble,
tidyr, utils, VennDiagram
data.table, stringr, ensembldb, AnnotationFilter,
EnsDb.Hsapiens.v86, EnsDb.Mmusculus.v79, EnsDb.Rnorvegicus.v79,
Rcpi, methods, utils
methods, parallel, Matrix (>= 1.5-0), grid, annotate, graph
(>= 1.45.1), Biobase, S4Vectors, BiocParallel, AnnotationDbi,
IRanges, GenomeInfoDb, GenomicRanges, GenomicFeatures, mvtnorm,
qtl, Rgraphviz
graphics, rjson, GetoptLong (>= 0.0.9), RCurl, utils, stats,
GlobalOptions, shiny, DT, GenomicFeatures, digest, GO.db,
progress, circlize, AnnotationDbi,
TxDb.Hsapiens.UCSC.hg19.knownGene,
TxDb.Hsapiens.UCSC.hg38.knownGene, org.Hs.eg.db, RColorBrewer,
S4Vectors, GenomeInfoDb, foreach, doParallel, Rcpp
stats, RColorBrewer, Rtsne, umap, ggplot2, ggrepel, reshape2,
methods, scales, cluster, grid, grDevices
car, cowplot, doMC, parallel, dplyr, egg, foreach, ggplot2,
graphics, grDevices, grid, methods, nls2, nnet, rlang,
S4Vectors, scales, stats, stringr, SummarizedExperiment,
tibble, rtracklayer, reshape2, utils
Biobase, ggplot2, graphics, grDevices, methods, plotly, stats,
MultiAssayExperiment, MultiDataSet, SummarizedExperiment, utils
GOSemSim, AnnotationDbi, GO.db, pheatmap, ggplot2, ggrepel,
treemap, tm, wordcloud, shiny, grDevices, grid, stats, methods,
umap
dplyr, magrittr, rlang, stats, purrr, BiocParallel, graphite,
Rcpp, tibble, ggplot2, ggraph, igraph, reshape2, org.Hs.eg.db,
SummarizedExperiment, edgeR, methods, ggforce, ggnewscale,
pheatmap, utils
reshape2, future, future.apply, ape, scales, Seurat, ggplot2,
ggtree, patchwork, methods, stats, base, utils
Rcpp (>= 0.12.11), RcppEigen (>= 0.3.2.9.0),EBSeq,
BiocParallel, mclust, SingleCellExperiment, cluster, Oscope,
SummarizedExperiment, stats, methods
igraph, Matrix, BiocGenerics, BiocParallel, BiocNeighbors,
BiocSingular, S4Vectors, SummarizedExperiment, scran, scater,
scuttle, bluster, methods, DelayedArray, xgboost, stats, utils,
MASS, IRanges, GenomicRanges, GenomeInfoDb, Rsamtools,
rtracklayer
methods, Rcpp (>= 1.0.0), RcppParallel (>= 5.0.1), rstan (>=
2.21.3), rstantools (>= 2.1.0), VGAM, data.table, MASS,
logitnorm, ggplot2, matrixStats, assertthat, viridis, coda,
BiocStyle, cowplot, stats, SummarizedExperiment,
SingleCellExperiment, Matrix, dplyr, S4Vectors
stringdist, dplyr, reshape2, ggalluvial, stringr, vegan,
powerTCR, SingleCellExperiment, SummarizedExperiment, plyr,
parallel, doParallel, methods, utils, rlang, igraph, ggraph,
tidygraph, SeuratObject
stats, utils, methods, grid, gridExtra, Matrix, BiocGenerics,
S4Vectors, SummarizedExperiment, DelayedArray,
DelayedMatrixStats, beachmat, BiocNeighbors, BiocSingular,
BiocParallel, rlang, ggbeeswarm, viridis, Rtsne, RColorBrewer,
RcppML, uwot, pheatmap, ggrastr, ggrepel
dplyr, rmarkdown, data.table, Biostrings, parallel, stats,
plyr, knitr, ggplot2, gridExtra, DECIPHER, stringr, sangerseqR,
kableExtra, tibble, scales, rlang, flowCore, methods
methods, stats, utils, SingleCellExperiment,
SummarizedExperiment, MultiAssayExperiment, MsCoreUtils,
matrixStats, S4Vectors, dplyr, magrittr
AnnotationDbi, ggplot2, data.table, ExperimentHub, HDF5Array,
magrittr, RSQLite, dplyr, fgsea, scales, methods, qvalue,
stats, utils, reshape2, visNetwork, BiocParallel, fastmatch,
reactome.db, Matrix, clusterProfiler, readr, DOSE, rhdf5,
GSEABase, DelayedArray, BiocGenerics, tibble
BiocGenerics, Biostrings, class, grDevices, GenomeInfoDb,
GenomicRanges, IRanges, nloptr, methods, stats, utils,
PMCMRplus, parallel, pvclust, ppclust, clue, survival, maxstat,
survivalAnalysis, future, VGAM, MASS, kknn, glmnet, e1071,
randomForest, ada, future.apply, ggplot2, pROC, pheatmap,
RColorBrewer, listenv, reshape2, scales, survminer, dplyr,
ggpubr, cowplot, tibble, readr, shiny, shinydashboard,
shinycssloaders, shinyWidgets, bsplus, DT, magrittr, tidyr,
BiocFileCache, proxy, rtracklayer, BSgenome
ggplot2, org.Hs.eg.db, patchwork, AnnotationDbi, BiocGenerics,
ComplexHeatmap, DGEobj.utils, GSVA, IRanges,
SummarizedExperiment, consensusOV, dplyr, ensembldb, ggridges,
grid, magrittr, matrixStats, maxstat, methods, openair,
RColorBrewer, TxDb.Hsapiens.UCSC.hg19.knownGene,
TxDb.Hsapiens.UCSC.hg38.knownGene, stats, survival, survminer,
viridis
BiocParallel, EBImage, terra, stats, spatstat.geom, S4Vectors,
grDevices, SummarizedExperiment, methods, cytomapper
ape, AnnotationHub, batchelor, BiocParallel, celldex,
colourpicker, colorspace, cowplot, cluster, ComplexHeatmap,
data.table, DelayedMatrixStats, DESeq2, dplyr, DT,
ExperimentHub, ensembldb, fields, ggplot2, ggplotify, ggrepel,
ggtree, gridExtra, GSVA (>= 1.26.0), GSVAdata, igraph,
KernSmooth, limma, MAST, Matrix, matrixStats, methods, msigdbr,
multtest, plotly, plyr, ROCR, Rtsne, S4Vectors, scater, scMerge
(>= 1.2.0), scran, Seurat (>= 3.1.3), shiny, shinyjs, SingleR,
SoupX, sva, reshape2, shinyalert, circlize, enrichR, celda,
shinycssloaders, DropletUtils, scds (>= 1.2.0), reticulate (>=
1.14), tools, tximport, fishpond, withr, GSEABase, R.utils,
zinbwave, scRNAseq (>= 2.0.2), TENxPBMCData, yaml, rmarkdown,
magrittr, scDblFinder, metap, VAM (>= 0.5.3), tibble, rlang,
TSCAN, TrajectoryUtils, scuttle, utils, stats
ggplot2, methods, stats, dplyr, spatstat.geom,
spatstat.random, SpatialExperiment, SummarizedExperiment
reticulate, basilisk (>= 1.9.10), checkmate, stats,
SpatialExperiment, methods, SummarizedExperiment, Matrix,
S4Vectors, ggplot2, ggrepel, scales, gridExtra
BiocParallel, BiocFileCache, data.table, dplyr, edgeR, WGCNA,
flashClust, htmlwidgets, genefilter, ggplot2, ggdendro,
grImport, grid, gridExtra, gplots, igraph, limma, methods,
Matrix, rsvg, shiny, dynamicTreeCut, grDevices, graphics,
ggplotify, parallel, plotly, rappdirs, reshape2, scater,
scuttle, scran, stats, SummarizedExperiment,
SingleCellExperiment, shinydashboard, S4Vectors, tibble, utils,
visNetwork, UpSetR, xml2, yaml
shiny, golem, ggplot2, cowplot, plotly, viridisLite,
shinyWidgets, sessioninfo, grid, grDevices, methods,
AnnotationHub, utils, png, scater, DT, ExperimentHub,
RColorBrewer, SummarizedExperiment, stats, graphics, S4Vectors,
IRanges, fields, benchmarkme, SingleCellExperiment,
BiocFileCache, jsonlite, tibble, rtracklayer, Matrix,
BiocGenerics, GenomicRanges, magick, paletteer, scuttle, edgeR,
limma, statmod
ggplot2, concaveman, BiocParallel, spatstat.explore,
spatstat.geom, lmerTest, BiocGenerics, S4Vectors, lme4,
methods, mgcv, pheatmap, rlang, grDevices, IRanges, stats,
data.table, dplyr, tidyr, scam, SingleCellExperiment,
SpatialExperiment, SummarizedExperiment, ggforce
graphics, stats, dplyr, magrittr, sp, raster, spdep, ggplot2,
pheatmap, grDevices, Seurat, SpatialExperiment,
SummarizedExperiment
dplyr, SpatialExperiment (>= 1.5.2), SummarizedExperiment,
SingleCellExperiment, edgeR, rlang, readr, tibble, ggplot2,
tidyr, ruv, limma, patchwork, S4Vectors, Biobase, BiocGenerics,
grDevices, stats, methods, ggalluvial, mclustcomp, RUVSeq
DBI, RSQLite, dplyr, dbplyr, igraph, Rdpack, AnnotationHub,
utils
Rcpp (>= 1.0.8), GenomicRanges, rlang, Biostrings,
rtracklayer, utils, methods, igraph, stats, grDevices,
RColorBrewer, pheatmap, ggplot2, ggnetwork, intergraph,
networkD3
scales, stats, utils, ggplot2, data.table, purrr, dplyr,
VariantAnnotation, GenomicRanges, MatrixGenerics,
bestNormalize, depmixS4, naniar, stringr
tibble, readr, dplyr, magrittr, tidyr, stringi, stringr,
rlang, purrr, tidyselect, preprocessCore, stats, parallel,
utils, lifecycle, scales, SummarizedExperiment, GenomicRanges,
methods, S4Vectors, crayon
grDevices, graphics, animation, tibble, dplyr, stringr, purrr,
methods, shiny, BiocFileCache, readr, tools, plotly, ggplot2
grDevices, stats, tools, utils, Biobase, Matrix (>= 1.4-2),
MSnbase (>= 2.3.10), ggplot2 (>= 2.2.1), mzR (>= 2.27.5)
MASS, pbkrtest (>= 0.4-4), lmerTest, Matrix (>= 1.4.0),
iterators, foreach, doParallel, gplots, RhpcBLASctl, progress,
reshape2, aod, scales, Rdpack, rlang, lme4 (>= 1.1-10),
grDevices, graphics, Biobase, methods, utils, stats
matrixStats, limma, parallel, shiny, qvalue, grDevices, stats,
MultiAssayExperiment, graphics
variancePartition (>= 1.26.0), limma, EnrichmentBrowser (>=
2.22.0), GSEABase (>= 1.54.0), msigdbr (>= 7.5.1), Rfast,
ggplot2, tidyr, reshape2, progress, utils, Rdpack, stats
methods, BiocGenerics, AnnotationDbi, VariantAnnotation,
Biostrings, S4Vectors, IRanges, Rsamtools, GenomicFeatures,
Gviz, lattice, seqinr, GenomeInfoDb
methods, utils, DBI, RSQLite, stats4, BiocGenerics, Biobase,
S4Vectors, IRanges
GenomicFeatures, Rsamtools, rtracklayer, RCurl, BiocGenerics,
jsonlite, BiocInstaller, httr, AnnotationDbi, Biobase,
Biostrings, DBI, GEOquery, GenomeInfoDb, OrganismDbi, RSQLite,
rBiopaxParser, AnnotationForge, futile.logger (>= 1.3.0), XML,
xml2
utils, methods, RSQLite, BiocInstaller, AnnotationDbi (>=
1.31.19), S4Vectors, interactiveDisplayBase, httr
BiocGenerics (>= 0.7.5), BiocStyle, Biobase, ggplot2,
WriteXLS, gtools, RColorBrewer, limma, scales, rgl, grid,
gtable, gridExtra, biovizBase, rainbow
Rcpp (>= 0.12.1), S4Vectors, matrixStats, RColorBrewer,
gtools, oligoClasses, combinat, GenomeInfoDb, IRanges, methods,
BiocGenerics
NOISeq, IRanges, Rsamtools, exomeCopy, foreach, ggplot2, plyr,
xlsx
parallel, data.table, seqinr, S4Vectors, IRanges, BSgenome,
BiocParallel
grid, irlba, lattice, signal, sp, stats4, utils
BiocGenerics (>= 0.15.1), GO.db, biomaRt, BSgenome,
GenomicFeatures, GenomeInfoDb, matrixStats, AnnotationDbi,
limma, multtest, RBGL, graph, BiocInstaller, stats, regioneR,
DBI, ensembldb, Biobase
BiocGenerics, boot, AnnotationDbi, IRanges, GenomeInfoDb,
GenomicRanges, GenomicFeatures, ggplot2, gplots, graphics,
grDevices, grid, gridBase, gtools, methods, plotrix, dplyr,
parallel, plyr, magrittr, RColorBrewer, rtracklayer, S4Vectors,
TxDb.Hsapiens.UCSC.hg19.knownGene, UpSetR
Biostrings, fBasics, GenomicRanges, IRanges (>= 2.3.13),
graphics, grDevices, HilbertVis, ShortRead, stats, timsac,
utils
methods, circlize (>= 0.3.1), GetoptLong, colorspace,
RColorBrewer, dendextend (>= 1.0.1), GlobalOptions (>= 0.0.6)
BiocGenerics, S4Vectors (>= 0.7.21), IRanges(>= 2.3.23),
GenomicRanges, GenomicAlignments, parallel, tools
RColorBrewer,stats,preprocessCore,Cairo,png,
lattice,reshape2,gplots,pcaMethods,ggplot2,
limma,knitr,tmvtnorm,norm,impute, imputeLCMD, XLConnect
methods, ggplot2, DESeq2, fdrtool, reshape2, GenomicRanges,
smoothmest, plyr, tidyr, assertthat, S4Vectors
limma, GenomicRanges, parallel, methods, graphics, plyr, Gviz,
IRanges
annotate, annotationTools, biomaRt, Biobase, BiocGenerics,
corpcor, doParallel, foreach, fpc, hwriter, IRanges, iterators,
mclust, QTLRel, regress, rhdf5, Rsamtools, RUnit, XML
RColorBrewer, amap, edgeR, gplots, grDevices, stats, utils,
IRanges, zlibbioc, lattice, systemPipeR, tools
methods, graphics, BiocGenerics, IRanges (>= 1.13.9), DESeq,
aroma.light, Rsamtools (>= 1.5.75), biomaRt, Biostrings,
AnnotationDbi, GenomicFeatures, GenomicRanges
AnnotationDbi, ComplexHeatmap, DESeq2, EDASeq, GO.db,
KEGGREST, KEGGgraph, MASS, PathNet, ReportingTools, Rgraphviz,
S4Vectors, SparseM, SPIA, SummarizedExperiment, biocGraph,
biomaRt, edgeR, geneplotter, graph, hwriter, limma, mixtools,
neaGUI, npGSEA, safe, stringr, topGO
methods, Biobase, tools, dplyr, IRanges, Biostrings,
S4Vectors, kebabs, igraph, Matrix, digest, filehash, Rcpp,
ggplot2, gtable, grid, reshape2, ggdendro, BiocParallel
BiocParallel, Biostrings, CRISPRseek, ChIPpeakAnno,
GenomicRanges, data.table, matrixStats, BSgenome, parallel
methods, utils, tools, DBI (>= 0.2-5), RSQLite (>= 0.8-1),
RCurl, XVector, Biostrings (>= 2.23.3), rtracklayer (>=
1.29.24), biomaRt (>= 2.17.1), Biobase (>= 2.15.1)
Rsamtools, GenomicRanges, IRanges, BiocGenerics (>= 0.15.3),
data.table, stringr, GenomeInfoDb, ggplot2, grid, gridExtra,
methods, igraph, S4Vectors, dplyr, Gviz
Rcpp (>= 0.11.2), S4Vectors, Biobase, IRanges, data.table
BiocGenerics (>= 0.2.0), S4Vectors (>= 0.7.21), IRanges (>=
2.3.23), GenomicRanges (>= 1.7.12), Rsamtools (>= 1.8.5),
Biostrings (>= 2.24.1), chipseq (>= 1.6.1), hwriter (>= 1.3.0),
Cairo (>= 1.5.5), GenomicFeatures (>= 1.9.31), BiocParallel,
parallel, tools, rtracklayer (>= 1.17.19), GenomicAlignments,
VariantTools (>= 1.6.1)
pROC, deSolve, rootSolve, compiler, preprocessCore,
GenomicFeatures, GenomicRanges, IRanges, BiocGenerics,
GenomicAlignments, Rsamtools, S4Vectors
rhdf5, dplyr, magrittr, tidyr, data.table, ShortRead,
Biostrings, ggplot2, methods, BiocGenerics, XVector
akima, GenomicRanges (>= 1.18.4), irr, jsonlite, parallel,
plot3D, plyr, RCurl, ROCR, testthat
cgdsr, parallel, stringr, reshape2, data.table, RColorBrewer,
methods, LowMACAAnnotation, BiocParallel, motifStack,
Biostrings
GenomicRanges, SNPassoc, limma, DMRcate, snpStats, vegan,
BiocGenerics, minfi, IRanges, S4Vectors, methods, doParallel,
parallel, ggplot2, sva
gdata, pls, sfsmisc, MASS, rpart, rda, genefilter, fpc, ggvis,
shiny, rgl, gbm, RColorBrewer, hwriter, threejs, mlbench
plyr, IRanges, preprocessCore, vsn, grid, reshape2, stats4,
affy, impute, pcaMethods, mzID (>= 1.5.2), MALDIquant (>=
1.12), digest, lattice, ggplot2, S4Vectors, Rcpp
lme4, marray, limma, gplots, ggrepel, preprocessCore,
data.table, MSnbase, reshape, survival
methods, oligoClasses, S4Vectors, Biobase, DNAcopy,
BiocGenerics, ff, foreach, matrixStats, IRanges, lattice,
GenomicRanges (>= 1.17.16), SummarizedExperiment (>= 0.2.0),
GenomeInfoDb, data.table, grid, stats
graphics, grid, methods, S4Vectors, IRanges (>= 1.13.5),
Biostrings (>= 1.24.0), lattice, rGADEM, utils
Rcpp (>= 0.11.1), parallel, data.table, graph, Rgraphviz,
gtools, igraph, methods
Biobase, BiocInstaller, GenomicRanges, graph, IRanges, RBGL,
RSQLite, S4Vectors, stats
e1071, gplots, limma, MASS, mRMRe, randomForest, ROCR, sva
limma, affy, genefilter, preprocessCore, aroma.affymetrix,
aroma.core
Rsamtools (>= 1.10.2), GenomicFeatures (>= 1.19.8), biomaRt
(>= 2.17.1), stringr, RCurl, Nozzle.R1, VariantAnnotation (>=
1.7.28), rtracklayer, RSQLite, ggplot2, AnnotationDbi,
customProDB (>= 1.7.0), pheatmap
mzR (>= 2.3.2), MSnbase, Biostrings, GenomeInfoDb, utils,
Biobase, BiocInstaller, RCurl
methods, zlibbioc, BiocGenerics, S4Vectors, IRanges,
BiocInstaller, Biobase, Biostrings, BSgenome, Rsamtools (>=
1.19.38), GenomicFeatures (>= 1.17.13), ShortRead (>= 1.19.1),
GenomicAlignments, BiocParallel, GenomeInfoDb, rtracklayer,
GenomicFiles
parallel, clues, ggplot2, pheatmap, IRanges, clValid,
igraph,data.table,GenomicRanges,S4Vectors,
ggbio,reshape2,Hmisc, RCurl
utils, grDevices, graphics, stats, tools, xtable, R2HTML,
TeachingDemos, BiocGenerics, S4Vectors, IRanges, XVector,
GenomicRanges, SummarizedExperiment, biomaRt, BSgenome,
Rsamtools, ShortRead
Biostrings(>= 2.32.1), GenomicRanges(>= 1.16.4), Rsamtools(>=
1.16.1), rtracklayer(>= 1.24.2), GenomicAlignments(>= 1.5.12)
methods,XML,limma (>= 3.18),survival,RCircos,data.table (>=
1.9.4),RCurl,RJSONIO
XML, assertthat, stringi, rvest, data.table, magrittr, xml2
BiocGenerics, GenomeInfoDb, GenomicRanges, IRanges, reshape,
GenomicFeatures, grid, plyr, S4Vectors, GenomicAlignments,
ggplot2, ggbio, Rsamtools, rtracklayer
BiocGenerics, Biostrings, IRanges, methods, S4Vectors, knitr
(>= 1.7), BiocStyle, plyr, markdown, grid, reshape2, digest,
Rcpp (>= 0.11.6), biovizBase, shiny, Rsamtools,
GenomicAlignments, GenomicFiles
utils, BiocGenerics (>= 0.1.3), zlibbioc, bitops, BiocParallel
ggplot2, shiny, topGO, segmented, reshape2, org.Hs.eg.db,
org.Mm.eg.db
AnnotationDbi, BiocGenerics, Biostrings, GenomicAlignments,
GenomicFeatures, GenomeInfoDb, igraph, parallel, Rsamtools,
rtracklayer, RUnit, S4Vectors, SummarizedExperiment (>= 0.2.0)
methods, graphics, lattice, grid, foreach, utils, Biobase,
IRanges, GenomeInfoDb, GenomicRanges, SummarizedExperiment,
oligoClasses (>= 1.31.1)
DESeq2,cluster,ggplot2,lattice,GenomeInfoDb,BiocParallel,VariantAnnotation,BiocGenerics,IRanges,methods,
RColorBrewer, Biostrings, grDevices,gridExtra,stats,grid,utils,
graphics, reshape2
methods, Biostrings, GenomicRanges, IRanges, S4Vectors,
VariantAnnotation, SummarizedExperiment
methods, stringr, gdsfmt, GenomicRanges, IRanges, S4Vectors,
GWASExactHW, VariantAnnotation, Biobase
Biobase, S4Vectors (>= 0.7.1), IRanges (>= 2.3.7),
GenomeInfoDb (>= 1.1.19), GenomicRanges (>= 1.21.6), hwriter,
methods, zlibbioc, lattice, latticeExtra,
methods, utils, igraph, BiocGenerics, S4Vectors, IRanges (>=
2.3.21), GenomeInfoDb, GenomicRanges, GenomicFeatures,
Rsamtools, GenomicAlignments, graph, Rgraphviz
BiocGenerics (>= 0.15.3), S4Vectors (>= 0.7.11), IRanges,
GenomeInfoDb
downloader (>= 0.4), GGally, grDevices, graphics,
GenomicRanges, XML, Biobase, affy, heatmap.plus, xtable,
data.table, EDASeq (>= 2.0.0), RCurl, edgeR (>= 3.0.0), rjson,
plyr, CNTools, cghMCR, biomaRt, coin, gplots, ggplot2,
survival, stringr (>= 1.0.0), IRanges, scales, rvest, stats,
utils, dnet, igraph, supraHex, S4Vectors, SummarizedExperiment,
BiocGenerics, GenomicFeatures,
TxDb.Hsapiens.UCSC.hg19.knownGene, limma, knitr, devtools,
genefilter, ConsensusClusterPlus, RColorBrewer, doParallel,
dplyr, parallel, xml2
VGAM, reshape2, nls2, foreach, grid, gridExtra, doParallel,
parallel, RColorBrewer, RCurl, plyr, VennDiagram
Rgraphviz, ggplot2, RColorBrewer, reshape2, cgdsr, igraph,
grid, gridExtra, xtable, gtable, scales
S4Vectors, IRanges, BiocGenerics, reshape2, GenomeInfoDb,
BiocParallel, cowplot
R.utils, methods, Biobase, parallel, edgeR, DESeq2,
GenomicRanges, RBGL, DESeq, fields, limma, TeachingDemos,
KEGGgraph, qpgraph, clipper, AnnotationDbi, doParallel
Biobase, oligoClasses (>= 1.31.1), IRanges (>= 1.14.0),
S4Vectors, foreach, matrixStats, data.table, grid, lattice,
methods, GenomeInfoDb, crlmm, tools
utils, DBI, zlibbioc, Biobase, S4Vectors (>= 0.7.11), IRanges
(>= 2.3.25), XVector (>= 0.5.6), Biostrings (>= 2.33.5),
AnnotationDbi (>= 1.27.9), BSgenome (>= 1.37.6), rtracklayer
(>= 1.25.16), GenomicFeatures (>= 1.19.17)
DBI, RSQLite (>= 1.0.0), Biobase, S4Vectors (>= 0.7.21),
IRanges (>= 2.3.23), RBGL, graph, AnnotationDbi, BiocParallel,
Biostrings (>= 2.33.11), GenomeInfoDb (>= 1.3.6), GenomicRanges
(>= 1.19.13), GenomicFeatures, Rsamtools (>= 1.17.8), BSgenome,
Gviz, shiny
pracma, matrixStats, locfit, ggplot2, methods, Biobase, dplyr,
Delaporte, magrittr
methods, zlibbioc, BiocGenerics, S4Vectors, IRanges
affy, limma, GOstats, gcrma, splines, xtable, AnnotationDbi,
ggplot2, gplots, oligoClasses, ReportingTools, hwriter, lattice
GenomicRanges (>= 1.17.25), IRanges (>= 1.99.22), S4Vectors
(>= 0.1.2), RColorBrewer, splines, sva, limma, rtracklayer (>=
1.29.25), Biobase (>= 2.25.0), GenomeInfoDb
Biobase, graph (>= 1.9.26), methods, RBGL (>= 1.13.5), tools,
utils, XML, RCurl, knitr, RUnit
grDevices, stats, scales, Hmisc, RColorBrewer, dichromat,
BiocGenerics, S4Vectors (>= 0.2.4), IRanges (>= 1.99.28),
GenomeInfoDb (>= 1.5.14), GenomicRanges (>= 1.17.19),
SummarizedExperiment, Biostrings (>= 2.33.11), Rsamtools (>=
1.17.28), GenomicAlignments (>= 1.1.16), GenomicFeatures (>=
1.21.19), AnnotationDbi, VariantAnnotation (>= 1.11.4)
MASS, limma(>= 3.22.0), glmnet, Biobase, nem
scales, stats, graphics, Biobase, locfit, gtools, data.table,
S4Vectors, R.utils (>= 2.0.0), matrixStats
GSEABase,GSEAlm,tkrplot, geNetClassifier,RUnit, Formula,
rpart,survival, Biobase, phenoTest, Formula, rpart, Biobase,
circlize, plyr
BiocGenerics, coda, EBarrays, gaga, gtools, GenomeInfoDb,
GenomicFeatures, limma, mgcv, Rsamtools, rtracklayer,
S4Vectors, sqldf, survival, VGAM
DOSE, GOSemSim, AnnotationDbi, methods, stats4, plyr, ggplot2,
GO.db, KEGGREST, magrittr, qvalue, topGO
colortools, hash, grDevices, gridExtra, rtracklayer, IRanges,
S4Vectors, GenomicRanges, ggbio, ggplot2, trackViewer, stats,
corrplot
IRanges, GenomeInfoDb, GenomicRanges, Rsamtools (>= 1.10.2),
GenomicAlignments, Biostrings (>= 2.26.3), GenomicFeatures (>=
1.17.13), biomaRt (>= 2.17.1), stringr, RCurl, plyr,
VariantAnnotation (>= 1.13.44), rtracklayer, RSQLite,
AnnotationDbi
tcltk, stats, Rtsne, e1071, flowCore, gplots, VGAM, reshape,
reshape2, shiny, vegan, Biobase, doParallel, pdist, igraph(>=
1.0.1), RANN(>= 2.5), Rcpp (>= 0.12.0)
derfinder (>= 1.1.0), GenomeInfoDb (>= 1.3.3),
GenomicFeatures, GenomicRanges (>= 1.17.40), ggbio (>=
1.13.13), ggplot2, IRanges (>= 1.99.28), limma, plyr,
RColorBrewer, reshape2, scales
AnnotationDbi (>= 1.27.9), BiocParallel, bumphunter (>=
1.9.2), derfinderHelper (>= 1.1.0), GenomeInfoDb (>= 1.3.3),
GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges
(>= 1.17.40), Hmisc, IRanges (>= 2.3.23), qvalue (>= 1.99.0),
Rsamtools, rtracklayer, S4Vectors (>= 0.7.20)
graphics, Rcpp (>= 0.10.3), RcppEigen, BiocGenerics, Matrix,
FNN, VIM, proxy, igraph, scatterplot3d
Biobase (>= 2.30.0), BiocGenerics (>= 0.16.1), BiocParallel
(>= 1.4.0), biomaRt (>= 2.26.1), Biostrings (>= 2.38.2), DESeq
(>= 1.22.0), edgeR (>= 3.12.0), GenomeInfoDb (>= 1.6.1),
genomeIntervals (>= 1.26.0), GenomicAlignments (>= 1.6.1),
GenomicRanges (>= 1.22.1), SummarizedExperiment (>= 1.0.1),
graphics, IRanges (>= 2.4.4), LSD (>= 3.0), locfit, methods,
parallel, Rsamtools (>= 1.22.0), S4Vectors (>= 0.8.3),
ShortRead (>= 1.28.0), utils
snow, tools, snowfall, RUnit, methods, ChemmineR, RCurl,
digest, BiocGenerics
methods, RSQLite, DBI, Biobase, GenomeInfoDb, AnnotationDbi
(>= 1.31.19), rtracklayer, S4Vectors, AnnotationHub, Rsamtools,
IRanges
S4Vectors, httpuv (>= 1.3.0), rjson, OrganismDbi, R6 (>=
2.0.0), mime (>= 0.2), GenomeInfoDb, GenomicRanges,
GenomicFeatures
GenomicFiles (>= 1.5.2), rtracklayer, S4Vectors, BiocGenerics,
GenomicRanges, ggplot2, Biobase, shiny, foreach
Biobase, BiocGenerics (>= 0.1.14), graph, graphics, methods,
rrcov, stats, utils, stats4, corpcor, Rcpp, matrixStats
Biobase, BiocGenerics, graph, graphics, lattice, methods,
stats, stats4, utils, RBGL, XML, tools,gridExtra,Rgraphviz
,data.table ,dplyr ,latticeExtra ,Rcpp ,RColorBrewer ,stringr
,flowUtils ,jsonlite
GenomicRanges, methods, BatchJobs, BBmisc, S4Vectors,
BiocGenerics, foreach, doParallel, bit, ff, rtracklayer,
ffbase, GenomicFiles
methods, snpStats, BiocGenerics, S4Vectors, IRanges,
GenomeInfoDb, GenomicRanges, SummarizedExperiment,
VariantAnnotation, Biobase, BatchJobs, gQTLBase, limma, gam,
dplyr, AnnotationDbi, GenomicFeatures, ggplot2, reshape2,
doParallel, foreach, ffbase
Biostrings, BSgenome, data.table, GenomeInfoDb, GenomicRanges,
GenomicAlignments, ggplot2, gridBase, impute, IRanges,
matrixStats, methods, parallel, plotrix, plyr, readr, reshape2,
Rsamtools, seqPattern, rtracklayer,
ggplot2, rtracklayer, BiocGenerics, GenomicRanges,
GenomeInfoDb, IRanges, methods, BiocParallel
grid, grDevices, graphics, stats, utils, gridExtra, scales,
reshape2, gtable, Hmisc, biovizBase (>= 1.17.1), Biobase,
S4Vectors, IRanges, GenomeInfoDb (>= 1.1.3), GenomicRanges (>=
1.21.10), SummarizedExperiment, Biostrings, Rsamtools (>=
1.17.28), GenomicAlignments (>= 1.1.16), BSgenome,
VariantAnnotation (>= 1.11.4), rtracklayer (>= 1.25.16),
GenomicFeatures (>= 1.17.13), OrganismDbi, GGally
ape, Biostrings, grid, jsonlite, magrittr, methods, stats4,
tidyr
methods, Biobase, Biostrings, graphics, grDevices, stats,
utils, IRanges (>= 2.3.23)
AnnotationDbi, graph, stats, utils, rappdirs
methods, BiocGenerics, S4Vectors, IRanges, GenomeInfoDb,
GenomicRanges, snpStats, Biostrings, Rsamtools, rtracklayer,
gQTLstats, Gviz, VariantAnnotation, AnnotationHub,
AnnotationDbi, GenomicFeatures, graph, ggbio, ggplot2
foreach, iterators, rtracklayer, dplyr, BSgenome, ggplot2,
scales
sonicLength, dplyr, GenomicRanges, BiocGenerics, rSFFreader
stats, graphics, preprocessCore, grDevices, randomForest,
affy, limma, parallel, vsn, GeneSelectMMD, rgl, MASS, lmtest,
scatterplot3d
Nozzle.R1, ggplot2, parallel, pcaMethods, reshape2, plyr,
BBmisc, mixOmics, preprocessCore, vsn, pls, impute, missForest,
doParallel, DiscriMiner, xcms, ape, scatterplot3d, pheatmap,
bootstrap, boot, caret, dplyr, stringr, RColorBrewer, DiffCorr,
RCurl, lattice, faahKO, data.table, CAMERA, igraph
rtracklayer, gplots, tools, GenomicAlignments, GenomeInfoDb,
GenomicFeatures, IRanges, ggplot2, muStat, Rsamtools, DBChIP
parallel, matrixStats, foreach, Matrix, gplots
RCurl, httr, stringr, Hmisc, energy, entropy, Roleswitch,
gplots, glmnet, impute, limma, pcalg
S4Vectors, GenomeInfoDb, IRanges, beanplot, RColorBrewer,
nor1mix, siggenes, limma, preprocessCore, illuminaio,
matrixStats, mclust, genefilter, nlme, reshape, MASS, quadprog,
GEOquery, mixOmics
methods, graphite, genefilter, BiocGenerics, gplots, GSEABase,
Biobase, parallel, corpcor, svd, cluster
BiocParallel, compiler, methods, motifStack, BSgenome,
BiocGenerics, Biostrings, GenomeInfoDb, GenomicRanges, Gviz,
S4Vectors, grDevices, grImport, rtracklayer, stringr, IRanges,
VariantAnnotation, matrixStats, TFMPvalue
Rcpp (>= 0.11.0), minet, randomForest, c3net, PCIT, GeneNet,
tools, pracma, Matrix, corpcor, fdrtool
limma, mvtnorm, utils, methods, HTqPCR (>= 1.16.0)
BiocGenerics (>= 0.3.2), Biobase (>= 2.17.8), methods,
graphics, IRanges (>= 2.1.10), GenomicRanges (>= 1.19.6),
SummarizedExperiment, Biostrings (>= 2.23.6), affyio (>=
1.23.2), ff, foreach, BiocInstaller, utils, S4Vectors, RSQLite
som, fastICA, scatterplot3d, pixmap, fdrtool, ape, igraph,
KernSmooth, biomaRt, Biobase
pRolocdata, shiny (>= 0.9.1), tools (>= 3.1.0), scales, DT
httr, igraph, plyr, rjson, R.utils, data.table
plyr,DNAcopy,lattice,aCGH,ggplot2,grid,shiny (>= 0.11.1),
limma,affy,mclust,TxDb.Hsapiens.UCSC.hg19.knownGene,
org.Hs.eg.db,GenomicFeatures,GenomeInfoDb,GenomicRanges,AnnotationDbi,
parallel,stats,utils,graphics,IRanges,grDevices
rjson, GetoptLong (>= 0.0.9), RCurl, utils
bumphunter (>= 1.7.6), derfinder (>= 1.1.0), derfinderPlot (>=
1.3.2), devtools (>= 1.6), GenomeInfoDb, GenomicRanges, ggbio
(>= 1.13.13), ggplot2, grid, gridExtra, IRanges, knitcitations
(>= 1.0.1), knitr (>= 1.6), knitrBootstrap (>= 0.9.0), mgcv,
RColorBrewer, rmarkdown (>= 0.3.3), whisker
GenomicRanges, SummarizedExperiment, GenomicAlignments(>=
0.99.4), methods, rtracklayer, S4Vectors
methods, IRanges, BSgenome, digest, rtracklayer,
GenomicRanges, Biostrings, shiny (>= 0.13.0), DBI, RSQLite,
plotrix, fields, grid, kohonen, parallel, GenomeInfoDb, class,
S4Vectors, ggplot2, reshape2, gridExtra, jsonlite, DT (>=
0.1.0), RColorBrewer
graphics, stats, gbm, Hmisc, S4Vectors, IRanges, GenomicRanges
methods, reshape2, ggplot2, S4Vectors, IRanges, GenomeInfoDb,
GenomicRanges, SummarizedExperiment (>= 0.2.0), Biostrings,
Rsamtools, GenomicAlignments, rtracklayer, preprocessCore,
chipseq, BiocParallel
BiocGenerics, GenomicRanges, GenomicFeatures,
SummarizedExperiment, VariantAnnotation, rjson, grid, ggplot2,
limma, edgeR, DESeq2, GOstats, GO.db, annotate, pheatmap,
BatchJobs
GenomicAlignments, GenomicFeatures, Gviz, pbapply, Rsamtools,
rtracklayer, scales, tools, IRanges
IRanges, GenomicRanges, XVector, Rsamtools, XML, ore, stringr,
RColorBrewer, methods
lme4, iterators, reshape2, doParallel, limma, dendextend
methods, affy, limma, lattice, ggplot2, hexbin
methods, BiocGenerics, AnnotationDbi, BSgenome,
VariantAnnotation, Biostrings, S4Vectors (>= 0.9.25), IRanges,
Rsamtools, GenomicFeatures, Gviz, lattice, latticeExtra,
gridExtra, seqinr, GenomeInfoDb
utils, grDevices, graphics, stats, foreach, doParallel,
BiocGenerics, S4Vectors, GenomeInfoDb, IRanges, Rsamtools,
Biostrings, GenomicAlignments, preseqR, ggplot2, reshape2,
ggdendro, ReorderCluster, mclust
methods, utils, DBI, RSQLite, stats4, BiocGenerics, Biobase,
S4Vectors (>= 0.9.25), IRanges
GenomicFeatures, Rsamtools, rtracklayer, BiocGenerics,
jsonlite, BiocInstaller, httr, AnnotationDbi, Biobase,
Biostrings, DBI, GEOquery, GenomeInfoDb, OrganismDbi, RSQLite,
rBiopaxParser, AnnotationForge, futile.logger (>= 1.3.0), XML,
xml2, curl
utils, methods, grDevices, RSQLite, BiocInstaller,
AnnotationDbi (>= 1.31.19), S4Vectors, interactiveDisplayBase,
httr
methods, foreach, S4Vectors (>= 0.9.25), DNAcopy, oligoClasses
(>= 1.21.3)
utils, rmarkdown, knitr, pander, gplots, MCMCpack, shiny, sva,
corpcor, moments, matrixStats, ggvis, d3heatmap, reshape2,
limma, grDevices, graphics, stats, methods
data.table, RCurl, methods, stats, utils, dplyr, graph,
Biobase
BiocGenerics (>= 0.7.5), BiocStyle, Biobase, ggplot2,
WriteXLS, gtools, RColorBrewer, limma, grid, gtable, gridExtra,
biovizBase, rainbow, e1071
utils, Rsamtools, GenomicRanges (>= 1.23.16), IRanges (>=
2.5.27), data.table, beanplot, rtracklayer, som, VGAM
XML, RCurl, RBGL, parallel, foreach, doParallel, openxlsx,
circlize, graph, stats, utils, grDevices, graphics, biomaRt
Biostrings(>= 2.33.4), RSQLite(>= 0.11.4), GenomeInfoDb(>=
1.1.3), GenomicRanges(>= 1.23.16), rtracklayer(>= 1.25.5),
XVector(>= 0.5.4), DBI(>= 0.2-7), GenomicAlignments(>= 1.1.9),
methods, S4Vectors(>= 0.9.25), IRanges(>= 2.5.27), readr(>=
0.2.2), BiocGenerics, tools, parallel
Rcpp (>= 0.12.1), S4Vectors (>= 0.9.25), matrixStats,
RColorBrewer, gtools, combinat, IRanges, GenomeInfoDb,
GenomicRanges, methods, BiocGenerics, graphics, stats, coda,
SummarizedExperiment
S4Vectors, grDevices, stats, utils, NOISeq, IRanges,
Rsamtools, exomeCopy, foreach, ggplot2, plyr, openxlsx
utils, stats, graph, RBGL, GSEABase, genefilter, annotate,
RSQLite
sva, IlluminaHumanMethylation450kmanifest, limma,RPMM,
DNAcopy, preprocessCore, impute, marray, wateRmelon, plyr,
GenomicRanges,RefFreeEWAS,qvalue,isva,doParallel,bumphunter,quadprog
BiocGenerics (>= 0.11.3), S4Vectors (>= 0.1.0), IRanges (>=
1.99.17), Rsamtools (>= 1.17.28), GenomicAlignments (>=
1.1.16), chipseq (>= 1.12.0), gtools, BiocParallel, methods,
reshape2, Nozzle.R1, Biobase, grDevices, stats, utils,
GenomicFeatures, TxDb.Hsapiens.UCSC.hg19.knownGene,
TxDb.Hsapiens.UCSC.hg38.knownGene,
TxDb.Hsapiens.UCSC.hg18.knownGene,
TxDb.Mmusculus.UCSC.mm10.knownGene,
TxDb.Mmusculus.UCSC.mm9.knownGene,
TxDb.Rnorvegicus.UCSC.rn4.ensGene,
TxDb.Celegans.UCSC.ce6.ensGene,
TxDb.Dmelanogaster.UCSC.dm3.ensGene
BiocGenerics (>= 0.1.0), GO.db, biomaRt, BSgenome,
GenomicFeatures, GenomeInfoDb, matrixStats, AnnotationDbi,
limma, multtest, RBGL, graph, BiocInstaller, stats, regioneR,
DBI, ensembldb, Biobase, seqinr, idr, GenomicAlignments,
SummarizedExperiment
BiocGenerics, boot, AnnotationDbi, DOSE, IRanges,
GenomeInfoDb, GenomicRanges, GenomicFeatures, ggplot2, gplots,
graphics, grDevices, grid, gridBase, gtools, methods, plotrix,
dplyr, parallel, magrittr, RColorBrewer, rtracklayer, S4Vectors
(>= 0.9.25), stats, TxDb.Hsapiens.UCSC.hg19.knownGene, UpSetR,
utils
matrixStats, MASS, Hmisc, Delaporte, methods
methods, pracma, princurve, scatterplot3d, RColorBrewer,
grDevices, graphics, utils
methods, circlize (>= 0.3.4), GetoptLong, colorspace,
RColorBrewer, dendextend (>= 1.0.1), GlobalOptions (>= 0.0.10)
maptpx, slam, plyr(>= 1.7.1), cowplot, gtools, flexmix,
picante, limma, parallel, reshape2, stats, utils, graphics,
grDevices
MSnbase, RColorBrewer,stats,preprocessCore,Cairo,png,
lattice,reshape2,gplots,pcaMethods,ggplot2,
limma,knitr,tmvtnorm,norm,impute, imputeLCMD, doParallel,
parallel, foreach,grDevices, graphics, XLConnect, utils, cp4p
(>= 0.3.5), scales, Matrix
checkmate, DESeq2, edgeR (>= 3.13.4), GenomicRanges, methods,
stats, SummarizedExperiment
plyr, utils, ggplot2, edgeR, BiocGenerics
BiocGenerics (>= 0.7.5), Biobase, BiocParallel, genefilter,
methods, locfit, geneplotter, ggplot2, Hmisc, Rcpp (>= 0.11.0)
limma, GenomicRanges, parallel, methods, graphics, plyr, Gviz,
IRanges, stats, utils, S4Vectors
AnnotationDbi, DO.db, ggplot2, GOSemSim, graphics, grDevices,
grid, igraph, methods, plyr, qvalue, reshape2, scales, stats4,
utils
GenomicRanges, IRanges, S4Vectors, BiocGenerics, methods,
BiocParallel, edgeR, utils, stats, grDevices, ggplot2, reshape2
RColorBrewer, amap, edgeR, gplots, grDevices, limma,
GenomicAlignments, locfit, stats, utils, IRanges, zlibbioc,
lattice, systemPipeR, tools, Rcpp, dplyr, BiocParallel,
parallel, S4Vectors, Rsamtools, DESeq2
BiocGenerics (>= 0.7.1), methods, graphics, grDevices, stats,
abind, tiff, jpeg, png, locfit, fftwtools (>= 0.9-7), utils
gplots, Biobase, GEOquery, limma, arrayQualityMetrics, impute,
RColorBrewer, zoo, igraph, plyr, Matrix, MASS, RCurl
PADOG (>= 1.6.0), GSVA (>= 1.12.0), globaltest (>= 5.18.0),
limma (>= 3.20.9), edgeR (>= 3.6.8), HTMLUtils (>= 0.1.5),
hwriter (>= 1.2.2), gplots (>= 2.14.2), ggplot2 (>= 1.0.0),
safe (>= 3.4.0), stringi (>= 0.5.0), parallel, stats,
grDevices, graphics, utils, org.Hs.eg.db, org.Mm.eg.db,
org.Rn.eg.db, EGSEAdata
tools, jsonlite, RSQLite, parallel, RCurl
AnnotationDbi, ComplexHeatmap, DESeq2, EDASeq, GO.db,
KEGGREST, KEGGgraph, MASS, ReportingTools, Rgraphviz,
S4Vectors, SPIA, SummarizedExperiment, biocGraph, edgeR,
geneplotter, graph, hwriter, limma, safe, topGO
gap, BiocGenerics, Matrix, utils, survey
flowCore, ConsensusClusterPlus, BiocGenerics, tsne, flowUtils,
XML
GWASTools, SeqArray, SeqVarTools, Biobase, gdsfmt, graph,
grDevices, graphics, stats, utils
methods, utils, stats, BiocGenerics, snpStats, ff, Rsamtools,
AnnotationDbi, Biobase, bit, VariantAnnotation, hexbin,
rtracklayer, Gviz, stats4, S4Vectors (>= 0.9.25), IRanges,
GenomeInfoDb, GenomicRanges, iterators, Biostrings, ROCR,
biglm, ggplot2, reshape2
BiocGenerics, S4Vectors (>= 0.9.38), IRanges, Rsamtools,
ShortRead, rtracklayer, ggplot2
BiocParallel, Biostrings, CRISPRseek, ChIPpeakAnno,
data.table, matrixStats, BSgenome, parallel, IRanges (>=
2.5.5), S4Vectors (>= 0.9.6), GenomicAlignments (>= 1.7.3),
GenomeInfoDb, Rsamtools
methods, ncdf4, gdsfmt, DBI, RSQLite, GWASExactHW, DNAcopy,
survival, sandwich, lmtest, logistf, quantsmooth
AnnotationDbi, biomaRt, BiocGenerics, Biostrings, DBI, FField,
GenomicFeatures, GenomicRanges, ggplot2 (>= 0.9.2), grid,
gridExtra, gtable, gtools, IRanges, plyr (>= 1.8.3), reshape2,
Rsamtools, scales, stats, utils, viridis
methods, utils, stats, tools, DBI, RSQLite, RCurl, XVector,
Biostrings (>= 2.23.3), rtracklayer (>= 1.29.24), biomaRt (>=
2.17.1), Biobase (>= 2.15.1)
GenomicAlignments (>= 1.7.7), Biobase, IRanges, S4Vectors (>=
0.9.25), VariantAnnotation, GenomeInfoDb
Rsamtools, rtracklayer, GenomicRanges, IRanges, BiocGenerics
(>= 0.15.3), data.table, stringr, GenomeInfoDb, ggplot2, grid,
gridExtra, methods, igraph, S4Vectors, dplyr, Gviz, Biobase,
graphics, stats, utils
methods, BiocGenerics (>= 0.17.0), Rcpp (>= 0.11.2), IRanges
(>= 2.5.26), data.table
DESeq2, edgeR, grDevices, methods, stats, utils
Biostrings, GenomeInfoDb, GenomicRanges, IRanges, httr, rjson,
Rsamtools, S4Vectors (>= 0.9.25)
GenomicAlignments, BSgenome, Rsamtools, rtracklayer, MASS,
parallel, GenomeInfoDb, SummarizedExperiment
methods, HilbertVis, png, grDevices, circlize (>= 0.3.3)
methods, data.table, RCurl, Rlabkey (>= 2.1.127), Biobase,
pheatmap, ggplot2, scales, stats, gtools, gplots, reshape2
IRanges, S4Vectors (>= 0.9.24), GenomeInfoDb, BiocGenerics,
methods, Matrix
DESeq2 (>= 1.10.0), statmod, Hmisc, plotrix, stringr, Biobase
(>= 2.30.0), locfit, BiocGenerics (>= 0.7.5), BiocParallel,
genefilter, geneplotter, S4Vectors, IRanges, GenomicRanges
BiocGenerics, S4Vectors, IRanges, GenomicRanges, data.table
Rcpp (>= 0.12.2), RcppArmadillo, MASS, limma, stats, utils,
statmod
data.table, plyr, dplyr, reshape, VennDiagram, ggplot2, ineq,
RColorBrewer, circlize, grid, utils, stats
BiocGenerics, S4Vectors, IRanges, GenomicRanges,
SummarizedExperiment, BiSeq, parallel
GenomicRanges, SNPassoc, limma, DMRcate, snpStats, vegan,
BiocGenerics, minfi, IRanges, S4Vectors, methods, doParallel,
parallel, ggplot2 (>= 2.0.0), sva, permute
gdata, pls, sfsmisc, MASS, rpart, rda, genefilter, fpc, ggvis,
shiny, rgl, gbm, RColorBrewer, hwriter, threejs (>= 0.2.2),
mlbench, stats4
lme4, marray, limma, gplots, ggrepel, preprocessCore,
data.table, MSnbase, reshape, survival, minpack.lm
RSQLite (>= 1.0.0), Biobase, AnnotationDbi, IRanges,
Biostrings, Rsamtools, GenomicRanges, SummarizedExperiment,
VariantAnnotation
Biobase, BiocParallel, BiocGenerics, ggplot2, grid, gridBase,
grDevices, graphics, hexbin, matrixStats, minfi (>= 1.17.9),
methods, RColorBrewer, shiny, stats, utils
methods, BiocGenerics, Biobase, S4Vectors (>= 0.9.25),
IRanges, GenomeInfoDb, GenomicRanges (>= 1.17.16),
SummarizedExperiment (>= 0.2.0), oligoClasses, DNAcopy, ff,
foreach, matrixStats, lattice, data.table, grid, stats, utils
BiocGenerics, GenomicRanges, IRanges, minfi, S4Vectors,
SummarizedExperiment
Rcpp (>= 0.11.1), parallel, data.table, graph, Rgraphviz,
gtools, igraph, methods, RColorBrewer, grDevices
Biobase, BiocInstaller, GenomicRanges, graph, IRanges, RBGL,
RSQLite, S4Vectors (>= 0.9.25), stats
S4Vectors (>= 0.9.25), Rsamtools (>= 1.10.2), GenomicFeatures
(>= 1.19.8), biomaRt (>= 2.17.1), stringr, RCurl, Nozzle.R1,
VariantAnnotation (>= 1.7.28), rtracklayer, RSQLite, ggplot2,
AnnotationDbi, customProDB (>= 1.7.0), pheatmap
DAPAR (>= 1.4.6), DAPARdata, rhandsontable, data.table,
shinyjs, DT, shiny, shinyAce
GenomicRanges (>= 1.20.3), IRanges (>= 2.2.1), RColorBrewer,
S4Vectors, data.table, grDevices, graphics, stats, utils,
SummarizedExperiment, GenomeInfoDb
graphics, methods, stats, utils, Biobase (>= 2.18.0), CGHbase
(>= 1.18.0), CGHcall (>= 2.18.0), DNAcopy (>= 1.32.0),
GenomicRanges (>= 1.20), IRanges (>= 2.2), matrixStats (>=
0.15.0), R.utils (>= 2.2.0), Rsamtools (>= 1.20),
methods, grDevices, graphics, utils, zlibbioc, BiocGenerics,
S4Vectors (>= 0.9.25), IRanges, BiocInstaller, Biobase,
Biostrings, BSgenome, Rsamtools (>= 1.19.38), GenomicFeatures
(>= 1.17.13), ShortRead (>= 1.19.1), GenomicAlignments,
BiocParallel, GenomeInfoDb, rtracklayer, GenomicFiles
methods, parallel, clues, ggplot2, pheatmap, clValid, igraph,
data.table, reshape2, Hmisc, RCurl, BiocGenerics, S4Vectors,
IRanges, GenomeInfoDb, GenomicRanges, ggbio
utils, grDevices, graphics, stats, tools, xtable, R2HTML,
TeachingDemos, BiocGenerics, S4Vectors (>= 0.9.25), IRanges,
XVector, GenomicRanges, SummarizedExperiment, biomaRt,
BSgenome, Rsamtools, ShortRead
methods, httpuv (>= 1.3.2), Rcpp (>= 0.11.5), jsonlite (>=
0.9.15), BiocGenerics, igraph
methods, S4Vectors, IRanges, GenomeInfoDb, ggbio, ggplot2,
exomeCopy, SomaticSignatures, Rsamtools, shiny, VGAM, dplyr,
reshape2
AnnotationDbi, reactome.db, igraph, graphite, GOSemSim
parallel, S4Vectors (>= 0.9.25), IRanges (>= 1.20.0),
GenomeInfoDb, GenomicRanges, Biostrings, Rsamtools,
GenomicAlignments, rtracklayer, BSgenome, gplots, grid, MASS,
gsmoothr, edgeR (>= 3.4.0), DNAcopy, Ringo, aroma.affymetrix,
Rsolnp, cluster
utils, BiocGenerics (>= 0.1.3), S4Vectors (>= 0.7.11), IRanges
(>= 2.3.7), XVector (>= 0.9.1), zlibbioc, bitops, BiocParallel
graphics, stats, utils, methods, RSelenium, e1071, parallel,
foreach, doParallel, doRNG, shiny, ggplot2, pheatmap (>=
1.0.8), RColorBrewer, colorspace, ROCR, robustbase, rrcov,
cluster, WriteXLS, Rtsne
AnnotationDbi, BiocGenerics, Biostrings, GenomicAlignments,
GenomicFeatures, GenomeInfoDb, RUnit, S4Vectors (>= 0.9.39),
grDevices, graphics, igraph, parallel, rtracklayer, stats
DESeq2, cluster, ggplot2, lattice, GenomeInfoDb, BiocParallel,
VariantAnnotation, BiocGenerics, IRanges, methods,
SummarizedExperiment, RColorBrewer, Biostrings,
grDevices,gridExtra,stats,grid,utils, graphics, reshape2,
scales, S4Vectors
data.table, reshape2, grid, ggplot2, stats
methods, parallel, S4Vectors, IRanges, GenomicRanges,
GenomeInfoDb, SummarizedExperiment, Biostrings,
VariantAnnotation
methods, stringr, gdsfmt, GenomicRanges, IRanges, S4Vectors,
GWASExactHW, VariantAnnotation, Biobase, logistf
networkD3, httr, igraph, utils, stats, miRNAtap, miRNAtap.db,
AnnotationDbi, org.Hs.eg.db, ggplot2, gridExtra, gplots,
grDevices, lattice, latticeExtra, visNetwork, TCGAbiolinks
methods, utils, igraph, BiocGenerics, S4Vectors (>= 0.9.25),
IRanges (>= 2.3.21), GenomeInfoDb, GenomicRanges (>= 1.23.21),
GenomicFeatures, Rsamtools, GenomicAlignments, graph, Rgraphviz
utils, stats, BiocGenerics (>= 0.15.3), S4Vectors (>= 0.9.36),
IRanges (>= 2.5.26), GenomeInfoDb
downloader (>= 0.4), GGally, grDevices, graphics,
GenomicRanges, XML (>= 3.98.0), Biobase, affy, xtable,
data.table, EDASeq (>= 2.0.0), edgeR (>= 3.0.0), jsonlite (>=
1.0.0), plyr, knitr, biomaRt, coin, gplots, ggplot2, ggthemes,
survival, stringr (>= 1.0.0), IRanges, scales, rvest (>=
0.3.0), stats, utils, dnet, igraph, supraHex, S4Vectors,
ComplexHeatmap (>= 1.10.2), R.utils, SummarizedExperiment (>=
1.2.3), BiocGenerics, GenomicFeatures,
TxDb.Hsapiens.UCSC.hg19.knownGene, limma, genefilter,
ConsensusClusterPlus, readr, RColorBrewer, doParallel, dplyr,
parallel, xml2, reshape2, httr (>= 1.2.1), parmigene, matlab,
circlize, ggrepel
bnlearn, Rgraphviz, gtools, parallel, foreach, doParallel,
iterators, RColorBrewer, circlize, cgdsr, igraph, grid,
gridExtra, xtable, gtable, scales, R.matlab, gRapHD, grDevices,
graphics, stats, utils,
S4Vectors, IRanges, BiocGenerics, reshape2, GenomeInfoDb,
BiocParallel, cowplot, Biostrings
R.utils, methods, Biobase, parallel, edgeR, DESeq2,
SummarizedExperiment, RBGL, DESeq, fields, limma,
TeachingDemos, KEGGgraph, qpgraph, clipper, AnnotationDbi,
doParallel
BiocGenerics, S4Vectors (>= 0.9.25), IRanges, Rsamtools (>=
1.19.38), zlibbioc, gplots
DBI, stringr, RSQLite, R.utils, WriteXLS
Biobase, S4Vectors (>= 0.9.25), IRanges (>= 1.14.0),
oligoClasses (>= 1.31.1), foreach, matrixStats, data.table,
grid, lattice, methods, GenomeInfoDb, crlmm, tools, stats,
utils, BSgenome.Hsapiens.UCSC.hg18
utils, DBI, zlibbioc, Biobase, S4Vectors (>= 0.9.47), IRanges
(>= 2.3.25), XVector (>= 0.5.6), Biostrings (>= 2.33.5),
AnnotationDbi (>= 1.27.9), BSgenome (>= 1.37.6), rtracklayer
(>= 1.25.16), GenomicFeatures (>= 1.19.17)
utils, DBI, RSQLite (>= 1.0.0), Biobase, S4Vectors (>=
0.9.25), IRanges (>= 2.3.23), RBGL, graph, AnnotationDbi,
BiocParallel, Biostrings (>= 2.33.11), GenomeInfoDb (>= 1.3.6),
GenomicRanges (>= 1.19.13), SummarizedExperiment,
GenomicFeatures, Rsamtools (>= 1.17.8), BSgenome, Gviz, shiny
Rsamtools (>= 1.17.6), BiocGenerics, Biostrings, parallel,
gmapR (>= 1.13.4), GenomicFeatures (>= 1.17.13), Matrix,
rtracklayer (>= 1.25.3), BiocParallel, GenomeInfoDb, BSgenome,
Biobase
affy, limma, GOstats, gcrma, splines, xtable, AnnotationDbi,
ggplot2, gplots, oligoClasses, ReportingTools, hwriter,
lattice, S4Vectors, edgeR
Biobase, limma, cluster, GOstats, graphics, stats,
reactome.db, KEGGREST, org.Hs.eg.db
grDevices, stats, scales, Hmisc, RColorBrewer, dichromat,
BiocGenerics, S4Vectors (>= 0.9.25), IRanges (>= 1.99.28),
GenomeInfoDb (>= 1.5.14), GenomicRanges (>= 1.23.21),
SummarizedExperiment, Biostrings (>= 2.33.11), Rsamtools (>=
1.17.28), GenomicAlignments (>= 1.1.16), GenomicFeatures (>=
1.21.19), AnnotationDbi, VariantAnnotation (>= 1.11.4),
ensembldb (>= 1.3.8)
IRanges (>= 2.5.17), GenomeInfoDb, scales, stats, graphics,
Biobase, locfit, gtools, data.table, S4Vectors, R.utils (>=
2.0.0), matrixStats (>= 0.50.0), permute
GSEABase, GSEAlm, tkrplot, geNetClassifier, RUnit, Formula,
rpart, survival, Biobase, phenoTest, circlize, plyr, graphics,
stats, utils
BiocGenerics, coda, EBarrays, gaga, gtools, GenomeInfoDb,
GenomicFeatures, limma, mgcv, Rsamtools, rtracklayer, S4Vectors
(>= 0.9.25), sqldf, survival, VGAM
AnnotationDbi, ggplot2, GO.db, GOSemSim, GSEABase, IRanges,
magrittr, methods, plyr, qvalue, stats, stats4, S4Vectors,
tidyr, topGO, utils
BiocGenerics, Biobase, IRanges, Rsamtools, GenomeInfoDb,
S4Vectors
grDevices, clue, cluster, gplots, IRanges, GenomicRanges,
S4Vectors, Rcpp, TSP, GenomicFiles, gtools, rtracklayer,
BiocParallel, DNAcopy, colorspace, reshape2, ggplot2, methods,
exomeCopy, diagram
Rsamtools, edgeR, limma, GenomicFeatures, AnnotationDbi,
methods, S4Vectors, IRanges, GenomeInfoDb, BiocGenerics,
Rhtslib, stats
S4Vectors (>= 0.9.25), IRanges, GenomeInfoDb, GenomicRanges,
Rsamtools (>= 1.10.2), GenomicAlignments, Biostrings (>=
2.26.3), GenomicFeatures (>= 1.17.13), biomaRt (>= 2.17.1),
stringr, RCurl, plyr, VariantAnnotation (>= 1.13.44),
rtracklayer, RSQLite, AnnotationDbi
tcltk, stats, Rtsne, e1071, flowCore, gplots, VGAM, reshape2,
ggrepel, shiny, vegan, Biobase, doParallel, parallel, pdist,
methods, destiny, FlowSOM(>= 1.4.0), igraph(>= 1.0.1), RANN(>=
2.5), Rcpp (>= 0.12.0)
clusterProfiler, DT, ReactomePA, ggplot2, RColorBrewer,
annotate, gplots, AnnotationDbi, DESeq2, DOSE, igraph,
grDevices, graphics, stats, utils, GenomicRanges, IRanges,
S4Vectors, SummarizedExperiment, stringi, reshape2,
org.Hs.eg.db, org.Mm.eg.db
derfinder (>= 1.1.0), GenomeInfoDb (>= 1.3.3),
GenomicFeatures, GenomicRanges (>= 1.17.40), ggbio (>=
1.13.13), ggplot2, IRanges (>= 1.99.28), limma, plyr,
RColorBrewer, reshape2, S4Vectors (>= 0.9.38), scales
AnnotationDbi (>= 1.27.9), BiocParallel, bumphunter (>=
1.9.2), derfinderHelper (>= 1.1.0), GenomeInfoDb (>= 1.3.3),
GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges
(>= 1.17.40), Hmisc, IRanges (>= 2.3.23), qvalue (>= 1.99.0),
Rsamtools, rtracklayer, S4Vectors (>= 0.9.38)
graphics, Rcpp (>= 0.10.3), RcppEigen, BiocGenerics, Matrix,
Hmisc, FNN, VIM, proxy, igraph, scatterplot3d
Rsamtools, Rhtslib, Biostrings, BSgenome, rhdf5, edgeR, limma,
csaw, locfit, methods, IRanges, S4Vectors, GenomeInfoDb,
BiocGenerics, grDevices, graphics, stats, utils
methods, GenomicRanges, foreach, plyr, dplyr, reshape2,
ggplot2, matrixStats, Sushi, edgeR, locfit, statmod, biomaRt,
GenomeInfoDb, S4Vectors, IRanges, grDevices, graphics, stats,
utils, Biobase, readr
sva, impute, digest, mnormt, methods, grDevices, graphics,
stats, utils
Biobase (>= 2.31.3), BiocGenerics (>= 0.17.2), BiocParallel
(>= 1.5.1), biomaRt (>= 2.27.2), Biostrings (>= 2.39.3), DESeq
(>= 1.23.0), edgeR (>= 3.13.4), GenomeInfoDb (>= 1.7.3),
genomeIntervals (>= 1.27.0), GenomicAlignments (>= 1.7.3),
GenomicRanges (>= 1.23.16), SummarizedExperiment (>= 1.1.11),
graphics, IRanges (>= 2.5.27), LSD (>= 3.0), locfit, methods,
parallel, Rsamtools (>= 1.23.1), S4Vectors (>= 0.9.38),
ShortRead (>= 1.29.1), utils
S4Vectors (>= 0.9.25), Biostrings, SummarizedExperiment
S4Vectors, GenomicRanges, SummarizedExperiment (>= 0.2.0),
OrganismDbi, GenomicFeatures, GenomeInfoDb, IRanges
epivizrServer (>= 1.0.1), epivizrData (>= 1.0.1),
GenomicRanges, S4Vectors, IRanges
GenomicFiles (>= 1.5.2), rtracklayer, S4Vectors, BiocGenerics,
GenomicRanges, SummarizedExperiment, ggplot2, Biobase, shiny,
foreach, AnnotationDbi
annotate, data.table, DOSE, FactoMineR, GO.db, GOstats,
graphite, igraph, S4Vectors, IRanges, MASS, nnet, reshape2,
Rgraphviz, scales
ggplot2, flowCore, plyr, changepoint, knitr, reshape2,
RColorBrewer, scales
methods, flowCore (>= 1.32.0), stats, extremevalues
Biobase, BiocGenerics, graph, graphics, lattice, methods,
stats, stats4, utils, RBGL, XML, tools, gridExtra, Rgraphviz,
data.table, dplyr, latticeExtra, Rcpp, RColorBrewer, stringr,
scales
methods, snpStats, BiocGenerics, S4Vectors (>= 0.9.25),
IRanges, GenomeInfoDb, GenomicFiles, GenomicRanges,
SummarizedExperiment, VariantAnnotation, Biobase, BatchJobs,
gQTLBase, limma, mgcv, dplyr, AnnotationDbi, GenomicFeatures,
ggplot2, reshape2, doParallel, foreach, ffbase, BBmisc,
beeswarm
BiocGenerics, IRanges, GenomicRanges(>= 1.23.24),
GenomicFeatures, Biostrings, VariantAnnotation, rtracklayer,
S4Vectors, GenomeInfoDb, Biobase
S4Vectors (>= 0.9.42), AnnotationDbi, annotate, Biobase,
graphics, methods, stats, survival
Biostrings, BSgenome, data.table, GenomeInfoDb, GenomicRanges
(>= 1.23.26), GenomicAlignments, S4Vectors (>= 0.9.25),
ggplot2, gridBase, impute, IRanges, matrixStats, methods,
parallel, plotrix, plyr, readr, reshape2, Rsamtools,
seqPattern, rtracklayer,
S4Vectors (>= 0.9.25), GenomeInfoDb (>= 1.1.3), IRanges (>=
2.5.12), methods, graphics
grid, grDevices, graphics, stats, utils, gridExtra, scales,
reshape2, gtable, Hmisc, biovizBase (>= 1.19.1), Biobase,
S4Vectors (>= 0.9.25), IRanges, GenomeInfoDb (>= 1.1.3),
GenomicRanges (>= 1.21.10), SummarizedExperiment, Biostrings,
Rsamtools (>= 1.17.28), GenomicAlignments (>= 1.1.16),
BSgenome, VariantAnnotation (>= 1.11.4), rtracklayer (>=
1.25.16), GenomicFeatures (>= 1.17.13), OrganismDbi, GGally,
ensembldb (>= 1.3.8), AnnotationDbi
plyr, scales, data.table, RColorBrewer, gridExtra
ape, grDevices, grid, jsonlite, magrittr, methods, stats4,
tidyr, utils
S4Vectors (>= 0.9.25), IRanges, rtracklayer (>= 1.31.2),
GenomicFeatures (>= 1.17.13), Biostrings, VariantAnnotation (>=
1.11.4), tools, Biobase, BSgenome, GenomicAlignments (>=
1.1.9), BiocParallel
methods, BiocGenerics, S4Vectors (>= 0.9.25), IRanges,
GenomeInfoDb, GenomicRanges, snpStats, Biostrings, Rsamtools,
rtracklayer, gQTLstats, Gviz, VariantAnnotation, AnnotationHub,
AnnotationDbi, GenomicFeatures, graph, ggbio, ggplot2,
SummarizedExperiment
sonicLength, dplyr, BiocGenerics, GenomicRanges (>= 1.23.16),
rSFFreader
shiny (>= 0.9.1.9008), shinydashboard, shinyBS, reshape2,
ggplot2, scales, ROCR, dplyr, DT, limma, methods, UpSetR
BiocGenerics (>= 0.7.5), DESeq2, plyr, dplyr, RColorBrewer,
gplots, methods, ggplot2, GGally
Nozzle.R1, ggplot2, parallel, pcaMethods, reshape2, plyr,
BBmisc, mixOmics, preprocessCore, vsn, pls, impute, missForest,
doParallel, DiscriMiner, xcms, ape, scatterplot3d, pheatmap,
bootstrap, boot, caret, dplyr, stringr, RColorBrewer, DiffCorr,
RCurl, lattice, faahKO, data.table, CAMERA, igraph, tidyr,
scales
rtracklayer, gplots, tools, GenomicAlignments, GenomeInfoDb,
GenomicFeatures, IRanges, ggplot2, muStat, Rsamtools, DBChIP,
matrixStats
lumi, methylumi, Gviz, genoset, SummarizedExperiment,
GenomicRanges, VariantAnnotation, IRanges, rtracklayer,
GenomicFeatures, annotate, Biobase (>= 2.5.5), AnnotationDbi,
genefilter, biomaRt, methods, parallel
S4Vectors, GenomeInfoDb, IRanges, beanplot, RColorBrewer,
nor1mix, siggenes, limma, preprocessCore, illuminaio,
matrixStats (>= 0.50.0), mclust, genefilter, nlme, reshape,
MASS, quadprog, data.table, GEOquery, stats, grDevices,
graphics, utils
limma, minfi, methylumi, IlluminaHumanMethylation450kmanifest,
statmod, ruv, stringr,
IlluminaHumanMethylation450kanno.ilmn12.hg19, org.Hs.eg.db,
AnnotationDbi, BiasedUrn
methods, compiler, grDevices, grImport, stringr, BiocGenerics,
S4Vectors (>= 0.9.25), IRanges, GenomeInfoDb, GenomicRanges,
Biostrings, BSgenome, rtracklayer, VariantAnnotation,
BiocParallel, motifStack, Gviz, matrixStats, TFMPvalue
methods, BiocGenerics, S4Vectors (>= 0.9.39), IRanges (>=
2.5.27), Biobase, GenomicRanges (>= 1.23.16), Rsamtools, stats,
graphics, parallel
BiocGenerics (>= 0.3.2), Biobase (>= 2.17.8), methods,
graphics, IRanges (>= 2.5.17), GenomicRanges (>= 1.23.7),
SummarizedExperiment, Biostrings (>= 2.23.6), affyio (>=
1.23.2), ff, foreach, BiocInstaller, utils, S4Vectors (>=
0.9.25), RSQLite
som, fastICA, scatterplot3d, pixmap, fdrtool, ape, KernSmooth,
biomaRt, Biobase
shiny (>= 0.9.1), scales, dplyr, DT, utils, graphics
Biobase, mclust (>= 4.3), caret, e1071, sampling, class,
kernlab, lattice, nnet, randomForest, proxy, FNN, BiocGenerics,
stats, RColorBrewer, scales, MASS, knitr, mvtnorm, gtools,
plyr, ggplot2, biomaRt, utils, grDevices, graphics
Biobase, BiocGenerics, BiocParallel (>= 1.3.13), parallel,
reshape2, grid, utils, cowplot, methods, limma, ggplot2,
gridExtra, grDevices, stats
DESeq2, SummarizedExperiment, GenomicRanges, IRanges,
S4Vectors, genefilter, ggplot2 (>= 2.0.0), d3heatmap, scales,
NMF, plyr, topGO, limma, GOstats, GO.db, AnnotationDbi, shiny
(>= 0.12.0), shinydashboard, shinyBS, ggrepel, DT, grDevices,
methods
BiocGenerics, Biostrings (>= 2.32.0), IRanges, S4Vectors,
logspline, limma
stringr, RCurl, igraph, ggplot2, reshape2, grid, parallel,
biomaRt, BgeeDB, topGO
BiocGenerics, biomaRt, circlize, rtracklayer, plyr
derfinder (>= 1.1.0), DEFormats, DESeq2, GenomeInfoDb,
GenomicRanges, knitcitations (>= 1.0.1), knitr (>= 1.6),
knitrBootstrap (>= 0.9.0), RefManageR, rmarkdown (>= 0.9.5),
S4Vectors, SummarizedExperiment
memoise, GenomicRanges, BSgenome, rtracklayer, parallel,
graphics, stats, utils, GenomeInfoDb, IRanges
httr, progress, jsonlite, utils, Biobase
biomaRt, BiocGenerics, data.table, dplyr, edgeR, grid, limma,
matrixStats, parallel, plyr, reshape2, rhdf5, rjson, shiny,
shinydashboard, tximport, viridis
dynamicTreeCut, zoo, edgeR, limma, stats, BiocGenerics,
methods, Biobase, utils, Matrix
httr, jsonlite, yaml, objectProperties, stringr, S4Vectors,
docopt, curl, liftr, rstudioapi, uuid, dplyr
BiocGenerics, GenomicRanges, GenomicFeatures,
SummarizedExperiment, VariantAnnotation, rjson, ggplot2, grid,
limma, edgeR, DESeq2, GOstats, GO.db, annotate, pheatmap,
BatchJobs
GenomicAlignments, GenomicFeatures, Gviz, pbapply, Rsamtools,
rtracklayer, scales, tools, IRanges, AnnotationDbi, grImport
BiocGenerics, caret, chipseq, e1071, GenomicAlignments,
GenomicRanges, GenomicFeatures, GenomeInfoDb, ggplot2,
graphics, grDevices, IRanges, pROC, reshape2, Rsamtools,
rtracklayer, S4Vectors, stats, utils
lme4 (>= 1.1-10), MASS, colorRamps, gplots, reshape2,
pbkrtest, iterators, doParallel, limma, grDevices, graphics,
utils, stats
methods, affy, limma, lattice, ggplot2 (>= 2.0.0), hexbin
methods, BiocGenerics, S4Vectors (>= 0.9.25), IRanges (>=
2.5.27), Biostrings, foreach, GenomicFeatures, ggplot2, Hmisc,
mclust, rtracklayer, seqinr, stringr, wmtsa
S4Vectors, IRanges, GenomicRanges, SummarizedExperiment,
BiocParallel
ggplot2, ROCR, knitr, qvalue, locfit, methods, stats, utils,
plyr
methods, utils, grDevices, graphics, stats, foreach,
doParallel, BiocGenerics, S4Vectors, GenomeInfoDb, IRanges,
Rsamtools, bamsignals, DNAcopy, Biostrings, GenomicAlignments,
ggplot2, reshape2, ggdendro, ggrepel, ReorderCluster, mclust
utils, methods, grDevices, RSQLite, BiocInstaller,
AnnotationDbi, S4Vectors, interactiveDisplayBase, httr, yaml
assertthat, methods, MASS, doParallel, parallel, e1071, earth,
foreach, randomForest, stats, IRanges, S4Vectors, data.table,
graphics
biocViews (>= 1.33.7), BiocInstaller, graph, httr, tools,
optparse, codetools, methods
rmarkdown, tools, stringr, httr, knitr, utils
XML, RCurl, RBGL, parallel, foreach, doParallel, openxlsx,
circlize, graph, stats, utils, grDevices, graphics, methods,
biomaRt
Rcpp, data.table, RColorBrewer, scales, grid, plyr, knitr,
abind, clue, grDevices, utils, pdist
SNFtool, iCluster, survival, cluster, impute, limma,
ConsensusClusterPlus, grDevices
sva, IlluminaHumanMethylation450kmanifest, limma,RPMM,
DNAcopy, preprocessCore,impute, marray, wateRmelon, plyr,goseq,
GenomicRanges,RefFreeEWAS,qvalue,isva,doParallel,bumphunter,quadprog,shiny,shinythemes,plotly
(>= 4.5.6),RColorBrewer,dendextend, matrixStats
BiocGenerics (>= 0.11.3), S4Vectors (>= 0.1.0), IRanges (>=
1.99.17), Rsamtools (>= 1.17.28), GenomicAlignments (>=
1.1.16), chipseq (>= 1.12.0), gtools, BiocParallel, methods,
reshape2, Nozzle.R1, Biobase, grDevices, stats, utils,
GenomicFeatures, TxDb.Hsapiens.UCSC.hg19.knownGene,
TxDb.Hsapiens.UCSC.hg18.knownGene,
TxDb.Mmusculus.UCSC.mm10.knownGene,
TxDb.Mmusculus.UCSC.mm9.knownGene,
TxDb.Hsapiens.UCSC.hg38.knownGene,
TxDb.Rnorvegicus.UCSC.rn4.ensGene,
TxDb.Celegans.UCSC.ce6.ensGene,
TxDb.Dmelanogaster.UCSC.dm3.ensGene
BiocGenerics (>= 0.1.0), GO.db, biomaRt, BSgenome,
GenomicFeatures, GenomeInfoDb, matrixStats, AnnotationDbi,
limma, multtest, RBGL, graph, BiocInstaller, stats, regioneR,
DBI, ensembldb, Biobase, seqinr, idr, GenomicAlignments,
SummarizedExperiment, Rsamtools
AnnotationDbi, BiocGenerics, boot, DOSE, IRanges,
GenomeInfoDb, GenomicRanges, GenomicFeatures, ggplot2 (>=
2.2.0), gplots, graphics, grDevices, grid, gridBase, gtools,
methods, plotrix, dplyr, parallel, magrittr, RColorBrewer,
rtracklayer, S4Vectors (>= 0.9.25), stats,
TxDb.Hsapiens.UCSC.hg19.knownGene, UpSetR, utils
RColorBrewer (>= 1.0.5), gplots (>= 2.8.0), graphics,
grDevices, methods, stats, utils
flowCore, flowWorkspace (>= 3.19.24), openCyto (>= 1.11.3),
XML, data.table, flowUtils (>= 1.35.7), jsonlite, RBGL,
ncdfFlow, Rgraphviz, Biobase, methods, graph, graphics, utils,
base64enc
MSnbase, RColorBrewer,stats,preprocessCore,Cairo,png,
lattice,reshape2,gplots,pcaMethods,ggplot2,
limma,knitr,tmvtnorm,norm,impute, imputeLCMD, doParallel,
parallel, foreach,grDevices, graphics, openxlsx, utils, cp4p
(>= 0.3.5), scales, Matrix, vioplot
utils, methods, ggplot2, Nozzle.R1, coda, edgeR, cluster,
logging, dplyr, tidyr, reshape, pheatmap, grid, gridExtra,
knitr, grDevices, stats
graph, igraph, RBGL, circlize, limma, edgeR, samr, EBSeq,
NBPSeq, DESeq, stats, grDevices, graphics, pheatmap, utils,
ggplot2, Matrix, jsonlite, tools, DESeq2, methods
limma, missMethyl, GenomicRanges, parallel, methods, graphics,
plyr, Gviz, IRanges, stats, utils, S4Vectors
AnnotationDbi, BiocParallel, DO.db, fgsea, ggplot2, GOSemSim
(>= 2.0.0), graphics, grDevices, grid, igraph, methods, qvalue,
reshape2, S4Vectors, scales, stats, stats4, utils
RColorBrewer, amap, edgeR, gplots, grDevices, limma,
GenomicAlignments, locfit, stats, utils, IRanges, zlibbioc,
lattice, systemPipeR, tools, Rcpp, dplyr, BiocParallel,
parallel, S4Vectors, Rsamtools, DESeq2, methods
PADOG (>= 1.6.0), GSVA (>= 1.12.0), globaltest (>= 5.18.0),
limma (>= 3.20.9), edgeR (>= 3.6.8), HTMLUtils (>= 0.1.5),
hwriter (>= 1.2.2), gplots (>= 2.14.2), ggplot2 (>= 1.0.0),
safe (>= 3.4.0), stringi (>= 0.5.0), parallel, stats, metap,
grDevices, graphics, utils, org.Hs.eg.db, org.Mm.eg.db,
org.Rn.eg.db, RColorBrewer, methods, EGSEAdata
tools, jsonlite, parallel, RCurl, tidyr, data.table, dplyr,
stringr, stringi
AnnotationDbi, ComplexHeatmap, DESeq2, EDASeq, GO.db,
KEGGREST, KEGGgraph, MASS, ReportingTools, Rgraphviz,
S4Vectors, SPIA, SummarizedExperiment, biocGraph, edgeR,
geneplotter, graph, hwriter, limma, methods, safe, topGO
methods, ExperimentHub, BiocInstaller, DBI, BiocCheck, httr,
curl
shiny, fda, doParallel, GenomicAlignments, Rcpp, methods,
foreach, parallel, GenomeInfoDb, Rsamtools, grDevices,
graphics, stats
graphics, stats, utils, methods, ncdf4, gdsfmt, DBI, RSQLite,
GWASExactHW, DNAcopy, survival, sandwich, lmtest, logistf,
quantsmooth
AnnotationDbi, biomaRt, BiocGenerics, Biostrings, DBI, FField,
GenomicFeatures, GenomicRanges, ggplot2 (>= 2.1.0), grid,
gridExtra, gtable, gtools, IRanges, plyr (>= 1.8.3), reshape2,
Rsamtools, scales, stats, utils, viridis
snpStats, mvtnorm, GGtools, Rsamtools, igraph, kernlab,
FactoMineR, plspm, IRanges, GenomicRanges,
data.table,rioja,grDevices, graphics,stats,utils
GenomicAlignments (>= 1.7.7), IRanges, S4Vectors (>= 0.9.25),
VariantAnnotation, GenomeInfoDb
rhdf5, dplyr, magrittr, tidyr, data.table, ShortRead,
Biostrings, ggplot2, methods, BiocGenerics, XVector, stats,
utils
Rcpp (>= 0.12.2), RcppArmadillo, fpc, vegan, mclust,
apcluster, ggplot2, ellipse, limma, utils, statmod, MASS,
igraph, grDevices, graphics, fastcluster, ggdendro, zoo, stats,
amap
RColorBrewer, gplots, bbmle, statmod, grDevices, graphics,
stats
VGAM, coda, BSgenome, BSgenome.Hsapiens.UCSC.hg19, S4Vectors,
methods, preprocessCore, GenomicAlignments, Rsamtools,
Biostrings, GenomicRanges, IRanges, VariantAnnotation,
SummarizedExperiment, GenomeInfoDb, rtracklayer, graphics,
stats, grDevices, utils, zlibbioc
Biobase, BiocGenerics, S4Vectors, data.table, ggplot2, plyr,
stringr, abind, methods, parallel, reshape2, stats, stats4,
graphics, utils
gdata, pls, sfsmisc, MASS, rpart, rda, genefilter, fpc, ggvis,
shiny, gbm, RColorBrewer, hwriter, threejs (>= 0.2.2), mlbench,
stats4
plyr, IRanges, preprocessCore, vsn, grid, reshape2, stats4,
affy, impute, pcaMethods, mzID (>= 1.5.2), MALDIquant (>=
1.12), digest, lattice, ggplot2, S4Vectors, XML, Rcpp
Rcpp, lme4, marray, limma, gplots, ggplot2, methods, grid,
ggrepel, preprocessCore, data.table, MSnbase, reshape,
reshape2, survival, minpack.lm, utils
KEGGgraph, mygene, hpar, org.Hs.eg.db, igraph, RCurl, biomaRt,
KEGGREST, AnnotationDbi, stats, graphics, utils
methods, GenomicRanges (>= 1.25.93), BiocGenerics,
SummarizedExperiment (>= 1.3.81), S4Vectors, IRanges, Biobase,
shinydashboard, shiny, utils
BiocGenerics, GenomicRanges, IRanges, minfi, S4Vectors,
SummarizedExperiment, methods,
IlluminaHumanMethylation450kanno.ilmn12.hg19, utils
stats, BiocGenerics (>= 0.18.0), VariantAnnotation (>=
1.18.1), reshape2 (>= 1.4.1), plyr (>= 1.8.3), ggplot2 (>=
2.1.0), pracma (>= 1.8.8), SummarizedExperiment (>= 1.2.2),
IRanges (>= 2.6.0), GenomeInfoDb (>= 1.8.1), Biostrings (>=
2.40.0), gridExtra (>= 2.2.1)
MCMCpack, limma, corpcor, rmarkdown, knitr, pander,
matrixStats, reshape2, scales, ggplot2, rentrez, BatchQC, DT,
gtools, tidyr, plyr, dplyr, ape, phyloseq, shiny, grDevices,
stats, methods, XML, graphics, utils, alluvial, BiocStyle
Matrix, MASS, ggbio, GenomicRanges, GenomeInfoDb, supraHex,
scales, grDevices, ggrepel, ROCR, randomForest
bnlearn, C50, MASS, matrixStats, partykit, Rgraphviz, WGCNA,
GO.db, impute, preprocessCore, grDevices, graphics, stats,
utils, parallel, pheatmap (>= 1.0.8)
DAPAR (>= 1.5.5), DAPARdata, rhandsontable, data.table,
shinyjs, DT, shiny, shinyAce, sm
GenomicRanges (>= 1.20.3), IRanges (>= 2.2.1), RColorBrewer,
S4Vectors, data.table, grDevices, graphics, stats, utils,
SummarizedExperiment, GenomeInfoDb, Rsamtools, Biostrings
graphics, methods, stats, utils, Biobase (>= 2.18.0), CGHbase
(>= 1.18.0), CGHcall (>= 2.18.0), DNAcopy (>= 1.32.0),
GenomicRanges (>= 1.20), IRanges (>= 2.2), matrixStats (>=
0.50.2), R.utils (>= 2.3.0), Rsamtools (>= 1.20),
biomaRt, AnnotationDbi, GenomicRanges,
BSgenome.Hsapiens.UCSC.hg19, GenomeInfoDb, Biostrings,
rtracklayer, org.Hs.eg.db, GenomicFeatures, genomation (>=
1.5.5), rmarkdown (>= 0.9.5), knitr (>= 1.12.3), BiocGenerics,
S4Vectors, stats,
utils, grDevices, stats, graphics, rgl, plotrix, S4Vectors,
IRanges, GenomeInfoDb, GenomicAlignments
graphics, stats, utils, methods, e1071, parallel, foreach,
doParallel, doRNG, shiny, ggplot2, pheatmap (>= 1.0.8), ROCR,
robustbase, rrcov, cluster, WriteXLS, Rcpp (>= 0.11.1), scater
graphics, ggplot2, seqLogo, Biostrings, biomaRt,
GenomicAlignments, GenomicRanges, GenomicFeatures, Gviz,
IRanges, S4Vectors, GenomeInfoDb, utils, plyr,
BSgenome.Mmusculus.UCSC.mm9
data.table, reshape2, grid, ggplot2, stats, grDevices,
graphics, utils
grDevices, graphics, stats, methods, stringr, gdsfmt,
GenomicRanges, IRanges, S4Vectors, GWASExactHW,
VariantAnnotation, Biobase, logistf
methods, utils, graphics, igraph, BiocGenerics, S4Vectors (>=
0.9.25), IRanges (>= 2.3.21), GenomeInfoDb, GenomicRanges (>=
1.23.21), GenomicFeatures, Rsamtools, GenomicAlignments, graph,
Rgraphviz
SpidermiR, KEGGREST, org.Hs.eg.db, AnnotationDbi, e1071, ROCR,
grDevices, igraph
utils, stats, Matrix, BiocGenerics (>= 0.15.3), S4Vectors (>=
0.11.7), IRanges (>= 2.7.2), GenomeInfoDb
downloader (>= 0.4), survminer, grDevices, gridExtra,
graphics, tibble, GenomicRanges, XML (>= 3.98.0), Biobase,
affy, xtable, data.table, EDASeq (>= 2.0.0), edgeR (>= 3.0.0),
jsonlite (>= 1.0.0), plyr, c3net, minet, knitr, methods,
biomaRt, gplots, ggplot2, ggthemes, survival, stringr (>=
1.0.0), IRanges, scales, rvest (>= 0.3.0), stats, utils, dnet,
igraph, selectr, supraHex, S4Vectors, ComplexHeatmap (>=
1.10.2), R.utils, SummarizedExperiment (>= 1.4.0), limma,
genefilter, ConsensusClusterPlus, readr, RColorBrewer,
doParallel, dplyr, clusterProfiler, pathview, parallel, xml2,
httr (>= 1.2.1), parmigene, matlab, circlize, ggrepel (>=
0.6.3)
Biobase, doParallel, foreach, ggplot2, gridExtra, grid, limma,
MASS, nls2, openxlsx (>= 2.4.0), parallel, plyr, RColorBrewer,
RCurl, reshape2, sme, splines, VennDiagram, VGAM, knitr,
rmarkdown, grDevices, stats, utils
BiocGenerics (>= 0.19.1), BiocParallel, Biostrings, ensembldb,
ensemblVEP, GenomeInfoDb, GenomicRanges, ggplot2, IRanges (>=
2.7.1), reshape2, Rsamtools, S4Vectors (>= 0.11.11),
SummarizedExperiment, VariantAnnotation (>= 1.19.9)
DBI, stringr, RSQLite, R.utils, WriteXLS, stats
pracma, matrixStats, locfit, ggplot2, methods, Biobase, dplyr,
Delaporte, magrittr, roar
affy, limma, GOstats, gcrma, splines, xtable, AnnotationDbi,
ggplot2, gplots, oligoClasses, ReportingTools, hwriter,
lattice, S4Vectors, edgeR, RSQLite, BiocGenerics
stats, DBI, limma, lumi, agricolae, RMySQL, DESeq2,
SummarizedExperiment, gplots
AnnotationDbi, AnnotationHub, dplyr, GenomicFeatures,
GenomicRanges, GenomeInfoDb (>= 1.10.3), ggplot2, IRanges,
methods, org.Dm.eg.db, org.Hs.eg.db, org.Mm.eg.db,
org.Rn.eg.db, readr, regioneR, reshape2, rtracklayer,
S4Vectors, stats, TxDb.Dmelanogaster.UCSC.dm3.ensGene,
TxDb.Dmelanogaster.UCSC.dm6.ensGene,
TxDb.Hsapiens.UCSC.hg19.knownGene,
TxDb.Hsapiens.UCSC.hg38.knownGene,
TxDb.Mmusculus.UCSC.mm9.knownGene,
TxDb.Mmusculus.UCSC.mm10.knownGene,
TxDb.Rnorvegicus.UCSC.rn4.ensGene,
TxDb.Rnorvegicus.UCSC.rn5.refGene,
TxDb.Rnorvegicus.UCSC.rn6.refGene, utils
Biobase, limma, cluster, GOstats, graphics, stats,
reactome.db, KEGGREST, org.Hs.eg.db, utils
dplyr (>= 0.4.3), htmlwidgets, Biobase, geNetClassifier,
AnnotationFuncs, org.Hs.eg.db, DOSE, clusterProfiler,
reactome.db, ReactomePA, plyr, grDevices, stats, utils,
DiagrammeR(>= 0.7), visNetwork, car, MASS (>= 7.3), gridExtra
(>= 2.0.0), AlgDesign (>= 1.1.7.3), psych (>= 1.4.8.11),
GPArotation (>= 2014.11.1), wordcloud (>= 2.5), markdown (>=
0.7.4), knitr (>= 1.8), ggdendro (>= 0.1.17), broom (>= 0.3.7),
pryr (>= 0.1), shiny (>= 0.13.2), jsonlite (>= 0.9.17),
shinyAce (>= 0.1), DT (>= 0.1), readr (>= 0.1.1), data.tree(>=
0.2.1), yaml(>= 2.1.13), scales(>= 0.2.5), curl(>= 0.9.1), covr
(>= 1.2.0), stringr (>= 1.0), tibble
methods, e1071, randomForest, ropls, Biobase
MASS, limma(>= 3.22.0), glmnet, Biobase, nem, graphics, stats,
utils
chipenrich.data, GenomeInfoDb, GenomicRanges, grid, IRanges,
lattice, latticeExtra, methods, mgcv, parallel, plyr, rms,
S4Vectors, stringr
methods, utils, grDevices, graphics, stats, foreach,
doParallel, S4Vectors, GenomeInfoDb, IRanges, reshape2,
Rsamtools, GenomicAlignments, bamsignals
NMF, RColorBrewer, ape, phylobase, cluster, stats, limma,
dendextend, howmany, locfdr, matrixStats, graphics, parallel
AnnotationDbi, ggplot2, GO.db, GOSemSim (>= 2.0.0), IRanges,
magrittr, methods, plyr, qvalue, stats, stats4, tidyr, utils
colortools, hash, grDevices, gridExtra, rtracklayer, IRanges,
S4Vectors, GenomicRanges, ggplot2, stats, corrplot
grDevices, clue, cluster, gplots, IRanges, GenomicRanges,
S4Vectors, Rcpp, TSP, GenomicFiles, gtools, rtracklayer,
BiocParallel, DNAcopy, colorspace, reshape2, ggplot2, methods,
exomeCopy, GenomicAlignments, diagram
DT, utils, GUIDEseq, GenomicRanges, GenomicFeatures,
BiocInstaller, BSgenome, AnnotationDbi, hash
tcltk, stats, Rtsne, e1071, flowCore, gplots, colourpicker,
VGAM, reshape2, ggrepel, shiny, vegan, Biobase, doParallel,
parallel, pdist, methods, destiny, FlowSOM(>= 1.4.0), igraph(>=
1.0.1), RANN(>= 2.5), Rcpp (>= 0.12.0)
stats, Rcpp (>= 0.11.3), ggplot2, reshape2, GO.db,
org.Hs.eg.db, AnnotationDbi, graphics
DT, ggplot2, RColorBrewer, annotate, gplots, AnnotationDbi,
DESeq2, DOSE, igraph, grDevices, graphics, stats, utils,
GenomicRanges, IRanges, S4Vectors, SummarizedExperiment,
stringi, reshape2, baySeq, d3heatmap, org.Hs.eg.db,
org.Mm.eg.db, limma, edgeR, clusterProfiler, V8, methods, sva,
shinydashboard, devtools, RCurl
AnnotationDbi (>= 1.27.9), BiocParallel, bumphunter (>=
1.9.2), derfinderHelper (>= 1.1.0), GenomeInfoDb (>= 1.3.3),
GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges
(>= 1.17.40), Hmisc, IRanges (>= 2.3.23), methods, qvalue (>=
1.99.0), Rsamtools (>= 1.25.0), rtracklayer, S4Vectors (>=
0.9.38)
methods, graphics, grDevices, utils, stats, Matrix, Rcpp (>=
0.10.3), RcppEigen, Biobase, BiocGenerics, Hmisc, FNN, VIM,
proxy, igraph, smoother, scales, scatterplot3d
S4Vectors (>= 0.9.25), Biostrings, SummarizedExperiment,
GenomeInfoDb
epivizrServer (>= 1.1.1), epivizrData (>= 1.1.1),
GenomicRanges, S4Vectors, IRanges
mpm, hexbin, Rtsne, MLP, grid, Biobase, MASS, stats, utils,
grDevices
data.table, BiocParallel, stats, ggplot2 (>= 2.2.0),
gridExtra, grid, fastmatch
BiocGenerics, MCMCpack, methods, Biobase, graph, RBGL,
ellipse, flowViz, flowCore, clue, mnormt
Biobase, BiocGenerics, graph, graphics, lattice, methods,
stats, stats4, utils, RBGL, XML, tools, gridExtra, Rgraphviz,
data.table, dplyr, latticeExtra, Rcpp, RColorBrewer, stringr,
scales, flowViz
Biobase, limma, RobustRankAggreg, ggplot2, parallel,
PANTHER.db, BiocParallel, rmarkdown, grDevices, graphics,
stats, utils
Biostrings, BSgenome, data.table, GenomeInfoDb, GenomicRanges
(>= 1.23.26), GenomicAlignments, S4Vectors (>= 0.9.25),
ggplot2, gridBase, impute, IRanges, matrixStats, methods,
parallel, plotrix, plyr, readr, reshape2, Rsamtools,
seqPattern, rtracklayer, Rcpp, RUnit
sonicLength, dplyr, BiocGenerics, GenomicRanges, rSFFreader,
readxl, methods
BiocGenerics (>= 0.7.5), DESeq2, reshape, tidyr, plyr, readr,
dplyr, RColorBrewer, gplots, methods, ggplot2, gtools,
gridExtra, grid, GGally
Biobase, graphics, grDevices, venn, mclust, stats, utils, MASS
data.table, ggplot2(>= 2.0), cowplot, cometExactTest,
RColorBrewer, NMF, ggrepel, methods, ComplexHeatmap, mclust,
VariantAnnotation, Biostrings, Rsamtools, rjson, grid,
DPpackage, wordcloud, grDevices, changepoint
AnnotationDbi, GOSemSim (>= 1.99.3), MeSH.db, methods
IRanges, data.table (>= 1.9.6), parallel, S4Vectors,
GenomeInfoDb, KernSmooth, qvalue, emdbook, Rsamtools, gtools,
fastseg, rtracklayer, mclust, Rcpp, R.utils, limma, grDevices,
graphics, stats, utils
S4Vectors, GenomeInfoDb, IRanges, beanplot, RColorBrewer,
lattice, nor1mix, siggenes, limma, preprocessCore, illuminaio,
matrixStats (>= 0.50.0), mclust, genefilter, nlme, reshape,
MASS, quadprog, data.table, GEOquery, stats, grDevices,
graphics, utils
limma, minfi, methylumi, IlluminaHumanMethylation450kmanifest,
statmod, ruv, stringr,
IlluminaHumanMethylation450kanno.ilmn12.hg19, org.Hs.eg.db,
AnnotationDbi, BiasedUrn, GO.db,
IlluminaHumanMethylationEPICmanifest,
IlluminaHumanMethylationEPICanno.ilm10b2.hg19
parallel, igraph (>= 1.0.1), BiocGenerics, HSMMSingleCell (>=
0.101.5), plyr, cluster, combinat, fastICA, grid, irlba (>=
2.0.0), matrixStats, MASS, reshape2, limma, dplyr, qlcMatrix,
pheatmap, stringr, proxy, slam, stats
plyr, foreach, parallel, doSNOW, stringr, mzR, reshape2,
fastcluster, ggplot2, sapa
methods,Biobase,gtools,flowCore(>=
1.31.17),flowViz,ncdfFlow(>=
2.11.34),flowWorkspace,flowStats(>= 3.29.1),flowClust(>=
3.11.4),MASS,clue,plyr,RBGL,graph,data.table,ks,RColorBrewer,lattice,rrcov,R.utils
shiny (>= 0.9.1), scales, dplyr, DT (>= 0.1.40), graphics,
utils
Biobase, mclust (>= 4.3), caret, e1071, sampling, class,
kernlab, lattice, nnet, randomForest, proxy, FNN, BiocGenerics,
stats, dendextend, RColorBrewer, scales, MASS, knitr, mvtnorm,
gtools, plyr, ggplot2, biomaRt, utils, grDevices, graphics
DESeq2, SummarizedExperiment, GenomicRanges, IRanges,
S4Vectors, genefilter, ggplot2 (>= 2.0.0), d3heatmap, scales,
NMF, plyr, topGO, limma, GOstats, GO.db, AnnotationDbi, shiny
(>= 0.12.0), shinydashboard, shinyBS, ggrepel, DT, shinyAce,
threejs, biomaRt, pheatmap, knitr, rmarkdown, tidyr, grDevices,
methods
BiocGenerics, Biobase, gplots, igraph, relations, marray,
fgsea
stats, graphics, utils, grDevices, methods, pracma, Biobase,
FNN, minpack.lm, BiocParallel
AnnotationHub, data.table, digest, dplyr, DT (>= 0.2),
fastmatch, highcharter (>= 0.5.0), httr, jsonlite, miscTools,
plyr, R.utils, shinyjs, stringr, stats, survival, Sushi, tools,
utils, XML, methods
stringr, RCurl, igraph, ggplot2, reshape2, grid, parallel,
biomaRt, BgeeDB, topGO, BiocInstaller, Biobase, labeling
assertive.base (>= 0.0-6), assertive.files (>= 0.0-2),
assertive.numbers (>= 0.0-2), assertive.properties (>= 0.0-3),
assertive.sets (>= 0.0-2), assertive.types (>= 0.0-2), Biobase
(>= 2.32.0), data.table (>= 1.9.6), dplyr (>= 0.5.0), magrittr
(>= 1.5), openxlsx (>= 3.0.0), pathological (>= 0.1-1),
reshape2 (>= 1.4.1), stats, stringi (>= 1.1.1),
SummarizedExperiment (>= 1.2.3), testthat (>= 1.0.2), tidyr (>=
0.6.0), utils
BiocParallel, derfinder, downloader, GEOquery, GenomeInfoDb,
GenomicRanges, IRanges, methods, RCurl, rentrez, rtracklayer
(>= 1.34.2), S4Vectors, stats, utils
derfinder (>= 1.1.0), DEFormats, DESeq2, GenomeInfoDb,
GenomicRanges, knitcitations (>= 1.0.1), knitr (>= 1.6),
knitrBootstrap (>= 0.9.0), methods, RefManageR, rmarkdown (>=
0.9.5), S4Vectors, SummarizedExperiment
glmnet, SummarizedExperiment, S4Vectors, BiocParallel, limma,
edgeR, stats, utils, methods
biomaRt, BiocGenerics, data.table, dplyr, edgeR, ggbeeswarm,
grid, limma, matrixStats, parallel, plyr, reshape2, rhdf5,
rjson, shiny, shinydashboard, stats, tximport, viridis
dynamicTreeCut, zoo, edgeR, stats, BiocGenerics, methods,
Biobase, utils, Matrix, shiny, graphics, grDevices, statmod
httr, jsonlite, yaml, objectProperties, stringr, S4Vectors,
docopt, curl, liftr, uuid, dplyr, shiny (>= 0.13), miniUI (>=
0.1.1), rstudioapi (>= 0.5)
BiocGenerics, Biostrings, BSgenome (>= 1.36.3), class,
graphics, grDevices, GenomicRanges, nloptr, methods, NMF,
stats, utils, VariantAnnotation, PMCMR
GenomicAlignments, GenomicFeatures, Gviz, pbapply, Rsamtools,
rtracklayer, S4Vectors, scales, tools, IRanges, AnnotationDbi,
grImport
MASS, pbkrtest (>= 0.4-4), iterators, splines, colorRamps,
gplots, reshape2, lme4 (>= 1.1-10), doParallel, limma,
grDevices, graphics, utils, stats
lattice, RColorBrewer, plyr, RANN, multtest, MassSpecWavelet
(>= 1.5.2), BiocParallel, S4Vectors
gplots, graphics, grDevices, msm, Rlab, stats, sva, utils
DESeq2, DEXSeq, GenomicRanges, GenomicFeatures, edgeR,
BiocGenerics, IRanges, GenomicAlignments, Gviz, S4Vectors,
AnnotationDbi, limma
BSgenome, Biostrings, ChIPpeakAnno, IRanges, GenomicRanges,
GenomicAlignments, GenomeInfoDb, GenomicScores, graphics, grid,
limma, Rsamtools, randomForest, rtracklayer, stats, stringr
methods, BiocGenerics, AnnotationDbi, BSgenome,
VariantAnnotation, Biostrings, S4Vectors (>= 0.9.25), IRanges,
Rsamtools, GenomicFeatures, Gviz, lattice, latticeExtra,
gridExtra, seqinr, GenomeInfoDb, nlme
GenomicFeatures, Rsamtools, rtracklayer, BiocGenerics,
jsonlite, BiocInstaller, biocViews, AnnotationDbi, Biobase,
Biostrings, DBI, GEOquery, GenomeInfoDb, OrganismDbi, RSQLite,
rBiopaxParser, AnnotationForge, futile.logger (>= 1.3.0), XML,
RCurl
utils, methods, grDevices, RSQLite, BiocInstaller,
AnnotationDbi (>= 1.31.19), S4Vectors, interactiveDisplayBase,
httr, yaml
org.Hs.eg.db, AnnotationDbi, reactome.db, graph, methods,
utils
RCurl, rjson, rcdk (>= 3.3.2), foreach, doParallel,
Biostrings, GOSemSim, ChemmineR, fmcsR, pls, randomForest,
utils, stats, graphics, methods, org.Hs.eg.db, ChemmineOB
biocViews (>= 1.33.7), BiocInstaller, graph, httr, tools,
optparse, codetools, methods, utils
methods, stats, utils, dplyr, RSQLite, DBI, rappdirs, httr
bookdown, knitr (>= 1.12), rmarkdown (>= 1.2), stats, utils,
yaml
BiocStyle, bookdown, rmarkdown, tools, stringr, httr, knitr,
utils
BiocGenerics (>= 0.7.5), BiocStyle, Biobase, ggplot2,
WriteXLS, gtools, RColorBrewer, limma, grid, gtable, gridExtra,
biovizBase, e1071, methods, grDevices, stats, utils
flowCore, ggplot2, graphics, grDevices, grid, gridExtra,
matrixStats, methods, plotly, RColorBrewer, stats, utils
methods, Rcpp, data.table, RColorBrewer, scales,
grid, plyr, knitr, abind, clue, grDevices, utils, pdist
sva,illuminaio,rmarkdown,IlluminaHumanMethylation450kmanifest,IlluminaHumanMethylationEPICanno.ilm10b2.hg19,
limma,RPMM, DNAcopy, preprocessCore,impute, marray, wateRmelon,
plyr,goseq,missMethyl,
GenomicRanges,qvalue,isva,doParallel,bumphunter,quadprog,shiny,shinythemes,plotly
(>= 4.5.6),RColorBrewer,dendextend, matrixStats,combinat
methods, GenomeInfoDb, stats, BiocParallel, GenomicRanges (>=
1.14.4), ggplot2 (>= 1.0), data.table (>= 1.9.6), Rsamtools (>=
1.16.1), IRanges (>= 1.6), S4Vectors (>= 0.8), biovizBase (>=
1.18), broom (>= 0.4), RColorBrewer (>= 1.1), dplyr (>= 0.5),
scales (>= 0.4.0), viridis (>= 0.3), hexbin (>= 1.27),
rmarkdown
BiocGenerics (>= 0.1.0), GO.db, biomaRt, BSgenome,
GenomicFeatures, GenomeInfoDb, matrixStats, AnnotationDbi,
limma, multtest, RBGL, graph, BiocInstaller, stats, regioneR,
DBI, ensembldb, Biobase, seqinr, idr, GenomicAlignments,
DelayedArray, SummarizedExperiment, Rsamtools
AnnotationDbi, BiocGenerics, boot, DOSE (>= 3.0.0), IRanges,
GenomeInfoDb, GenomicRanges, GenomicFeatures, ggplot2 (>=
2.2.0), gplots, graphics, grDevices, grid, gridBase, gtools,
methods, plotrix, dplyr, parallel, magrittr, RColorBrewer,
rtracklayer, S4Vectors, stats,
TxDb.Hsapiens.UCSC.hg19.knownGene, UpSetR, utils
rjson, graphics, stats, RCurl, DBI, digest, BiocGenerics, Rcpp
(>= 0.11.0), ggplot2,grid,gridExtra
methods, pracma, princurve, scatterplot3d, RColorBrewer,
grDevices, graphics, utils, stats
RColorBrewer (>= 1.0.5), gplots (>= 2.8.0), graphics,
grDevices, methods, cluster, shiny, stats, utils, doParallel,
foreach, ggplot2, reshape2
flowCore, flowWorkspace (>= 3.21.10), openCyto (>= 1.11.3),
XML, data.table, flowUtils (>= 1.35.7), jsonlite, RBGL,
ncdfFlow, Rgraphviz, Biobase, methods, graph, graphics, utils,
base64enc, plyr
MSnbase, RColorBrewer,stats,preprocessCore,Cairo,png,
lattice,reshape2,gplots,pcaMethods,ggplot2,
limma,knitr,tmvtnorm,norm,impute, imputeLCMD, doParallel,
parallel, foreach,grDevices, graphics, openxlsx, utils, cp4p
(>= 0.3.5), scales, Matrix, vioplot, imp4p (>= 0.3),
highcharter, DAPARdata
utils, methods, ggplot2, ggrepel, Nozzle.R1, coda, edgeR,
cluster, logging, dplyr, tidyr, reshape, pheatmap, grid,
gridExtra, knitr, grDevices, stats
Matrix, MASS, RcppRoll, ggplot2, methods, mvtnorm, stats,
parallel
DESeq2, limma, EDASeq, RColorBrewer, sva, Hmisc, pheatmap,
FactoMineR, corrplot, randomForest, e1071, caret, MASS,
lubridate, plsVarSel, kknn, FSelector, methods, stats, utils,
graphics, grDevices, reshape2
RColorBrewer, amap, edgeR, gplots, grDevices, limma,
GenomicAlignments, locfit, stats, utils, IRanges, zlibbioc,
lattice, systemPipeR, tools, Rcpp, dplyr, ggplot2,
BiocParallel, parallel, S4Vectors, Rsamtools, DESeq2, methods,
graphics, ggrepel
PADOG (>= 1.6.0), GSVA (>= 1.12.0), globaltest (>= 5.18.0),
limma (>= 3.20.9), edgeR (>= 3.6.8), HTMLUtils (>= 0.1.5),
hwriter (>= 1.2.2), gplots (>= 2.14.2), ggplot2 (>= 1.0.0),
safe (>= 3.4.0), stringi (>= 0.5.0), parallel, stats, metap,
grDevices, graphics, utils, org.Hs.eg.db, org.Mm.eg.db,
org.Rn.eg.db, RColorBrewer, methods, EGSEAdata (>= 1.3.1)
GenomicFeatures, stringr, GenomeInfoDb, igraph, MASS, nnls,
limma, matrixStats, RBGL, prodlim, graph, methods, utils,
stats, doParallel, foreach, affxparser, GenomicRanges,
S4Vectors
flowCore, ConsensusClusterPlus, BiocGenerics, tsne, XML,
flowUtils
BiocGenerics, Biostrings, dplyr, GenomeInfoDb, GenomicRanges,
httr, IRanges, jsonlite, methods, purrr, VariantAnnotation
Biobase, BiocGenerics, GWASTools, gdsfmt, GenomicRanges,
graph, IRanges, S4Vectors, SeqArray, SeqVarTools, graphics,
grDevices, methods, stats, utils
AnnotationDbi, biomaRt, BiocGenerics, Biostrings, DBI, FField,
GenomicFeatures, GenomicRanges (>= 1.25.4), ggplot2 (>= 2.1.0),
grid, gridExtra, gtable, gtools, IRanges (>= 2.7.5), plyr (>=
1.8.3), reshape2, Rsamtools, scales, stats, utils, viridis
plyr, graph, htmlwidgets, Rgraphviz, rjson, XML
stats, httr, xml2, jsonlite, utils, lazyeval, readr,
data.table, GenomicRanges, IRanges
methods, utils, stats, tools, DBI, RSQLite (>= 2.0), RCurl,
XVector, Biostrings (>= 2.23.3), rtracklayer (>= 1.29.24),
biomaRt (>= 2.17.1), Biobase (>= 2.15.1)
Rsamtools, rtracklayer, GenomicRanges, IRanges, BiocGenerics
(>= 0.15.3), data.table, stringr, GenomeInfoDb, ggplot2, grid,
gridExtra, methods, igraph, S4Vectors (>= 0.13.13), dplyr,
Gviz, Biobase, graphics, stats, utils
utils, XML, IRanges (>= 2.3.23), BSgenome, GenomeInfoDb,
AnnotationHub
Biobase, edgeR, grDevices, jsonlite, methods, scater, stats,
S4Vectors, utils
Biostrings, GenomeInfoDb, GenomicRanges, IRanges, httr, rjson,
Rsamtools, S4Vectors (>= 0.9.25), Biobase, methods
utils, tools, BiocGenerics, S4Vectors, IRanges
methods, data.table, RCurl, Rlabkey (>= 2.1.127), Biobase,
pheatmap, ggplot2, scales, stats, gtools, gplots, reshape2,
plotly, heatmaply (>= 0.7.0), rjson, rmarkdown
seqLogo, Biostrings, GenomicFeatures, IRanges, seqinr, limma,
graphics, grDevices, stats, utils, grid, methods, DBI, RMySQL,
GenomicAlignments, BiocParallel, BiocGenerics
IRanges, S4Vectors (>= 0.13.13), GenomeInfoDb, BiocGenerics,
methods, Matrix
Rcpp (>= 0.12.2), RcppArmadillo, fpc, vegan, mclust,
apcluster, ggplot2, ellipse, limma, utils, statmod, MASS,
igraph, grDevices, graphics, fastcluster, ggdendro, zoo, stats,
amap, Rtsne, gmodels
BiocParallel, graphics, utils, stats, AnnotationDbi, GO.db,
org.Hs.eg.db, GGally, ggplot2, scales, cluster
AnnotationDbi, Biobase, BiocParallel, data.table, edgeR,
futile.logger, ggplot2, GO.db, GOstats, gplots, graph,
graphics, grDevices, GSEABase, limma, matrixStats, mGSZ,
org.Hs.eg.db, RBGL, Rgraphviz, RJSONIO, stats, vegan
plyr, IRanges, preprocessCore, vsn, grid, stats4, affy,
impute, pcaMethods, mzID (>= 1.5.2), MALDIquant (>= 1.16),
digest, lattice, ggplot2, S4Vectors, XML, Rcpp
Rcpp, lme4, marray, limma, gplots, ggplot2, methods, grid,
ggrepel, preprocessCore, MSnbase, reshape2, survival,
minpack.lm, utils, grDevices, graphics, stats
glm2, ppcor, qvalue, car, boot, grid, ggplot2, gridExtra,
igraph, SummarizedExperiment, graphics, stats, utils
utils, S4Vectors, IRanges, GenomicRanges, BSgenome
KEGGgraph, mygene, hpar, org.Hs.eg.db, igraph, RCurl, biomaRt,
KEGGREST, AnnotationDbi,MWASTools, stats, graphics, utils
Biobase, BiocParallel, BiocGenerics, ggplot2, grid, gridBase,
grDevices, graphics, hexbin, matrixStats, minfi (>= 1.17.9),
methods, RColorBrewer, shiny, stats, SummarizedExperiment,
utils
methods, GenomicRanges (>= 1.25.93), BiocGenerics,
SummarizedExperiment (>= 1.3.81), S4Vectors, IRanges, Biobase,
reshape2, shinydashboard, shiny, stats, tidyr, UpSetR, utils
BiocGenerics, GenomicRanges, IRanges, S4Vectors,
SummarizedExperiment, methods, utils
stats, parallel, BiocGenerics (>= 0.18.0), VariantAnnotation
(>= 1.18.1), reshape2 (>= 1.4.1), plyr (>= 1.8.3), ggplot2 (>=
2.1.0), pracma (>= 1.8.8), SummarizedExperiment (>= 1.2.2),
IRanges (>= 2.6.0), GenomeInfoDb (>= 1.8.1), Biostrings (>=
2.40.0), gridExtra (>= 2.2.1)
graphics, methods, baseline, signal, GenomicAlignments,
GenomeInfoDb, rtracklayer, SummarizedExperiment, limma,
trackViewer, stats, utils
RSQLite, S4Vectors, GenomeInfoDb, IRanges, GenomicRanges,
GenomicFeatures, AnnotationDbi, methods, tools, utils,
BiocFileCache, dbplyr, DBI
Biobase, BiocInstaller, GenomicRanges, graph, IRanges, RBGL,
DBI, S4Vectors (>= 0.9.25), stats
MCMCpack, limma, corpcor, rmarkdown, knitr, pander,
matrixStats, reshape2, scales, ggplot2, rentrez, BatchQC, DT,
gtools, tidyr, plyr, dplyr, ape, phyloseq, shiny, grDevices,
stats, methods, XML, graphics, utils, alluvial, BiocStyle,
edgeR, preprocessCore, DESeq2
cleaver (>= 1.3.6), Biobase, Biostrings, IRanges, S4Vectors,
mzID, mzR (>= 1.99.1), MSnbase (>= 1.15.5), Pviz, biomaRt,
GenomicRanges, rtracklayer, ensembldb (>= 1.99.13),
BiocParallel, AnnotationFilter
Matrix, MASS, ggbio, GenomicRanges, GenomeInfoDb, supraHex,
scales, grDevices, ggrepel, ROCR, randomForest, glmnet, Gviz,
lattice, caret, plot3D, stats
DAPAR (>= 1.8.7), DAPARdata, rhandsontable, data.table,
shinyjs, DT, shiny, shinyAce, highcharter, openxlsx
GenomicRanges (>= 1.20.3), IRanges (>= 2.2.1), RColorBrewer,
S4Vectors, data.table, grDevices, graphics, stats, utils,
SummarizedExperiment, GenomeInfoDb, Rsamtools, Biostrings,
rtracklayer, ggplot2, futile.logger, VGAM, edgeR, limma
graphics, methods, stats, utils, Biobase (>= 2.18.0), CGHbase
(>= 1.18.0), CGHcall (>= 2.18.0), DNAcopy (>= 1.32.0),
GenomicRanges (>= 1.20), IRanges (>= 2.2), matrixStats (>=
0.50.2), R.utils (>= 2.3.0), Rsamtools (>= 1.20), BiocParallel
(>= 1.6.6),
biomaRt, AnnotationDbi, GenomicRanges,
BSgenome.Hsapiens.UCSC.hg19, GenomeInfoDb, Biostrings,
rtracklayer, org.Hs.eg.db, GenomicFeatures, genomation (>=
1.5.5), rmarkdown (>= 0.9.5), knitr (>= 1.12.3), BiocGenerics,
S4Vectors, stats, plotrix
methods, httpuv (>= 1.3.2), Rcpp (>= 0.11.5), jsonlite (>=
0.9.15), BiocGenerics, igraph, base64enc
graphics, stats, utils, methods, settings, BiocGenerics,
S4Vectors, Biostrings, GenomicRanges, IRanges, BiocParallel,
doParallel, parallel, foreach, caret, kernlab, ranger,
BSgenome, AnnotationHub, BSgenome.Hsapiens.UCSC.hg19,
org.Hs.eg.db, impute, iterators
grid, gridExtra, reshape2, gplots, ggplot2, plotrix,
RColorBrewer, STRINGdb, MCL, linkcomm, hash, png, sqldf,
igraph, knitr, RITANdata
Rcpp (>= 0.12.5), consensusSeekeR, BiocGenerics, GenomeInfoDb,
S4Vectors, BiocParallel, stats, graphics, methods, grDevices
RedeR, minet, snow, limma, data.table, car, IRanges, igraph,
S4Vectors
BiocGenerics, IRanges, methods, S4Vectors, stats,
SummarizedExperiment
S4Vectors, IRanges, GenomeInfoDb, GenomicRanges, gtools,
BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene,
phastCons100way.UCSC.hg19, SummarizedExperiment, GenomicScores
utils, BiocGenerics (>= 0.1.3), S4Vectors (>= 0.13.8), IRanges
(>= 2.3.7), XVector (>= 0.15.1), zlibbioc, bitops, BiocParallel
Biobase, S4Vectors (>= 0.13.8), IRanges (>= 2.3.7),
GenomeInfoDb (>= 1.1.19), GenomicRanges (>= 1.21.6), hwriter,
methods, zlibbioc, lattice, latticeExtra,
networkD3, httr, igraph, utils, stats, miRNAtap, miRNAtap.db,
AnnotationDbi, org.Hs.eg.db, ggplot2, gridExtra, gplots,
grDevices, lattice, latticeExtra, visNetwork, TCGAbiolinks,
gdata
utils, stats, tools, Matrix, BiocGenerics (>= 0.15.3),
S4Vectors (>= 0.13.13), IRanges (>= 2.7.2), GenomeInfoDb (>=
1.11.4)
shiny (>= 0.14.1), downloader (>= 0.4), grid, plotly, readr,
stringr (>= 1.1.0), SummarizedExperiment, ggrepel, data.table,
shinyFiles (>= 0.6.2), ggplot2 (>= 2.1.0), pathview, ELMER (>=
1.2.1), clusterProfiler, parallel, TCGAbiolinks (>= 2.2.4),
shinyjs (>= 0.7), colourpicker, shinyBS (>= 0.61)
downloader (>= 0.4), survminer, grDevices, gridExtra,
graphics, tibble, grid, GenomicRanges, XML (>= 3.98.0),
data.table, EDASeq (>= 2.0.0), edgeR (>= 3.0.0), jsonlite (>=
1.0.0), plyr, knitr, methods, biomaRt, ggplot2, ggthemes,
survival, stringr (>= 1.0.0), IRanges, scales, rvest (>=
0.3.0), stats, utils, selectr, S4Vectors, ComplexHeatmap (>=
1.10.2), R.utils, SummarizedExperiment (>= 1.4.0), genefilter,
ConsensusClusterPlus, readr, RColorBrewer, doParallel, dplyr,
GenomeInfoDb, GenomicFeatures, parallel, tools, xml2, httr (>=
1.2.1), matlab, circlize, ggrepel (>= 0.6.3)
Biobase, biobroom, broom, data.table, doParallel, foreach,
futile.logger, ggplot2, grDevices, gridExtra, grid, knitr,
limma, MASS, mefa, nls2, openxlsx (>= 2.4.0), parallel, plyr,
purrr, RColorBrewer, RCurl, reshape2, rmarkdown, sme, splines,
stats, stringr, utils, VennDiagram, VGAM
bnlearn, Rgraphviz, gtools, parallel, foreach, doParallel,
iterators, RColorBrewer, circlize, cgdsr, igraph, grid,
gridExtra, xtable, gtable, scales, R.matlab, gRapHD, grDevices,
graphics, stats, utils, methods
AnnotationHub, BiocGenerics, BiocParallel, GenomicAlignments,
GenomeInfoDb, GenomicRanges, gtools, IRanges, methods,
Rsamtools (>= 1.14.3), rtracklayer, S4Vectors,
SummarizedExperiment, utils
AnnotationFilter, BiocGenerics (>= 0.19.1), BiocParallel,
Biostrings, ensembldb, ensemblVEP, GenomeInfoDb, GenomicRanges,
GGally, ggplot2, Gviz, limma, IRanges (>= 2.7.1), reshape2,
Rsamtools, S4Vectors (>= 0.11.11), SummarizedExperiment,
VariantAnnotation (>= 1.19.9)
DBI, stringr, RSQLite, R.utils, WriteXLS, stats, BiocParallel
Biobase, S4Vectors (>= 0.9.25), IRanges (>= 1.14.0),
oligoClasses (>= 1.31.1), foreach, matrixStats, data.table,
grid, lattice, methods, GenomeInfoDb (>= 1.11.4), crlmm, tools,
stats, utils, BSgenome.Hsapiens.UCSC.hg18
utils, DBI, zlibbioc, Biobase, S4Vectors (>= 0.13.13), IRanges
(>= 2.3.25), XVector (>= 0.5.6), Biostrings (>= 2.33.5),
AnnotationDbi (>= 1.27.9), BSgenome (>= 1.37.6), rtracklayer
(>= 1.25.16), GenomicFeatures (>= 1.27.4)
utils, DBI, RSQLite (>= 1.0.0), Biobase, S4Vectors (>=
0.9.25), IRanges (>= 2.3.23), RBGL, graph, AnnotationDbi,
BiocParallel, Biostrings (>= 2.33.11), GenomeInfoDb (>= 1.3.6),
GenomicRanges (>= 1.19.13), SummarizedExperiment,
GenomicFeatures, Rsamtools (>= 1.17.8), BSgenome, Gviz, shiny,
GenomicScores
Rsamtools (>= 1.17.6), BiocGenerics, Biostrings, parallel,
GenomicFeatures (>= 1.17.13), Matrix, rtracklayer (>= 1.25.3),
BiocParallel, GenomeInfoDb, BSgenome, Biobase
grDevices, graphics, stats, utils, tcltk, tkrplot, limma,
affy, affyio, affyPLM, gcrma, BiocGenerics, BiocInstaller,
R2HTML, xtable
tmle, limma, foreach, parallel, doParallel, ggplot2,
wesanderson, magrittr, dplyr, stats, Matrix, methods,
SummarizedExperiment, superheat, SuperLearner, biotmleData
grDevices, stats, scales, Hmisc, RColorBrewer, dichromat,
BiocGenerics, S4Vectors (>= 0.9.25), IRanges (>= 1.99.28),
GenomeInfoDb (>= 1.5.14), GenomicRanges (>= 1.23.21),
SummarizedExperiment, Biostrings (>= 2.33.11), Rsamtools (>=
1.17.28), GenomicAlignments (>= 1.1.16), GenomicFeatures (>=
1.21.19), AnnotationDbi, VariantAnnotation (>= 1.11.4),
ensembldb (>= 1.99.13), AnnotationFilter (>= 0.99.8)
plyr, kernlab, gbm, stringr, cowplot, ggplot2, biomaRt,
Biostrings, parallel, utils, BSgenome.Hsapiens.UCSC.hg38,
rtracklayer, GenomicRanges, IRanges, S4Vectors, data.table
IRanges (>= 2.5.17), GenomeInfoDb, scales, stats, graphics,
Biobase, locfit, gtools, data.table, S4Vectors, R.utils (>=
2.0.0), matrixStats (>= 0.50.0), permute, limma, DelayedArray
(>= 0.2.1), HDF5Array
methods, readr, grid, Rsamtools, GenomeInfoDb,
GenomicAlignments, RColorBrewer, graphics, AnnotationDbi,
RCircos, org.Hs.eg.db, rmarkdown, graph, Rgraphviz, DT, plyr,
BiocStyle, ArgumentCheck
AnnotationDbi, BiocGenerics, chipenrich.data (>= 1.11.4),
GenomeInfoDb, GenomicRanges, grDevices, grid, IRanges, lattice,
latticeExtra, methods, mgcv, org.Dm.eg.db, org.Dr.eg.db,
org.Hs.eg.db, org.Mm.eg.db, org.Rn.eg.db, parallel, plyr, rms,
rtracklayer, S4Vectors, stats, stringr, utils
methods, utils, grDevices, graphics, stats, foreach,
doParallel, S4Vectors, GenomeInfoDb, IRanges, reshape2,
Rsamtools, GenomicAlignments, bamsignals, mvtnorm
NMF, RColorBrewer, ape, phylobase, cluster, stats, limma,
dendextend, howmany, locfdr, matrixStats, graphics, parallel,
MAST
AnnotationDbi, ggplot2, GO.db, GOSemSim (>= 2.0.0), magrittr,
methods, plyr, qvalue, rvcheck, stats, stats4, tidyr, utils
edgeR, DESeq2, capushe, Rmixmod, e1071, BiocParallel, ggplot2
(>= 2.1.0), scales, HTSFilter, corrplot, HTSCluster (>= 2.0.8),
gridExtra, grDevices, graphics, stats, methods, compositions,
mvtnorm
S4Vectors (>= 0.9.25), IRanges, GenomeInfoDb, GenomicRanges,
Rsamtools (>= 1.10.2), GenomicAlignments, Biostrings (>=
2.26.3), GenomicFeatures (>= 1.17.13), biomaRt (>= 2.17.1),
stringr, RCurl, plyr, VariantAnnotation (>= 1.13.44),
rtracklayer, RSQLite, AnnotationDbi, AhoCorasickTrie, methods
plotrix, viridis, methods, shiny, graphics, stats, grDevices,
S4Vectors, flowCore, Biobase
tcltk, grDevices, graphics, utils, stats, Rtsne, e1071,
flowCore, gplots, colourpicker, VGAM, reshape2, ggrepel, shiny,
shinyFiles, vegan, Biobase, doParallel, parallel, pdist,
methods, destiny, FlowSOM(>= 1.4.0), igraph(>= 1.1.2), RANN(>=
2.5), Rcpp (>= 0.12.0)
methods, graphics, grDevices, utils, stats, Matrix, Rcpp (>=
0.10.3), RcppEigen, Biobase, BiocGenerics, ggplot2, Hmisc, FNN,
VIM, proxy, igraph, smoother, scales, scatterplot3d
snow, tools, snowfall, RUnit, methods, ChemmineR, RCurl,
digest, BiocGenerics, gespeR,RcppAnnoy
methods, RSQLite (>= 1.1), DBI, Biobase, GenomeInfoDb,
AnnotationDbi (>= 1.31.19), rtracklayer, S4Vectors,
AnnotationHub, Rsamtools, IRanges, ProtGenerics, Biostrings,
curl
ggplot2, flowCore, plyr, changepoint, knitr, reshape2,
RColorBrewer, scales, methods, graphics, stats, utils
methods, snpStats, BiocGenerics, S4Vectors (>= 0.9.25),
IRanges, GenomeInfoDb, GenomicFiles, GenomicRanges,
SummarizedExperiment, VariantAnnotation, Biobase, BatchJobs,
gQTLBase, limma, mgcv, dplyr, AnnotationDbi, GenomicFeatures,
ggplot2, reshape2, doParallel, foreach, ffbase, BBmisc,
beeswarm, HardyWeinberg, graphics, stats, utils, shiny,
ldblock, plotly, erma
Biostrings, BSgenome, data.table, GenomeInfoDb, GenomicRanges
(>= 1.23.26), GenomicAlignments, S4Vectors (>= 0.9.25),
ggplot2, gridBase, impute, IRanges, matrixStats, methods,
parallel, plotrix, plyr, readr, reshape2, Rsamtools (>=
1.25.2), seqPattern, rtracklayer, RUnit
S4Vectors (>= 0.13.13), GenomeInfoDb (>= 1.1.3), IRanges (>=
2.5.12), methods, graphics
ggplot2, rtracklayer, BiocGenerics, GenomicRanges,
GenomeInfoDb, IRanges, methods, BiocParallel, Rtsne, graphics,
stats
grid, grDevices, graphics, stats, utils, gridExtra, scales,
reshape2, gtable, Hmisc, biovizBase (>= 1.23.3), Biobase,
S4Vectors (>= 0.13.13), IRanges, GenomeInfoDb (>= 1.1.3),
GenomicRanges (>= 1.21.10), SummarizedExperiment, Biostrings,
Rsamtools (>= 1.17.28), GenomicAlignments (>= 1.1.16),
BSgenome, VariantAnnotation (>= 1.11.4), rtracklayer (>=
1.25.16), GenomicFeatures (>= 1.17.13), OrganismDbi, GGally,
ensembldb (>= 1.99.13), AnnotationDbi, AnnotationFilter
ape, grDevices, grid, magrittr, methods, rvcheck, tidyr, utils
S4Vectors (>= 0.13.13), IRanges, rtracklayer (>= 1.31.2),
GenomicFeatures (>= 1.17.13), Biostrings, VariantAnnotation (>=
1.11.4), tools, Biobase, BSgenome, GenomicAlignments (>=
1.1.9), BiocParallel
DESeq2, SummarizedExperiment, GenomicRanges, IRanges,
S4Vectors, ggplot2 (>= 2.0.0), d3heatmap, pheatmap,
pcaExplorer, IHW, gplots, UpSetR, goseq, stringr, plyr, dplyr,
limma, GOstats, GO.db, AnnotationDbi, shiny (>= 0.12.0),
shinydashboard, shinyBS, DT, rentrez, rintrojs, knitr,
rmarkdown, shinyAce, BiocParallel, grDevices, methods
regioneR, GenomicRanges, Rsamtools, stats, graphics, memoise,
rtracklayer, GenomeInfoDb, S4Vectors, biovizBase, digest,
bezier
Matrix, snpStats, erma, VariantAnnotation, GenomeInfoDb,
Rsamtools, GO.db, GenomicFiles
data.table, ggplot2(>= 2.0), cowplot, cometExactTest,
RColorBrewer, NMF, ggrepel, methods, ComplexHeatmap, mclust,
VariantAnnotation, Biostrings, Rsamtools, rjson, grid,
DPpackage, wordcloud, grDevices, changepoint, gridExtra,
survival
AnnotationDbi, GOSemSim (>= 1.99.3), MeSH.db, methods, rvcheck
methylKit, BiocParallel, GenomicRanges, IRanges, S4Vectors,
methods, ggplot2, gridExtra
IRanges, data.table (>= 1.9.6), parallel, S4Vectors (>=
0.13.13), GenomeInfoDb, KernSmooth, qvalue, emdbook, Rsamtools,
gtools, fastseg, rtracklayer, mclust, Rcpp, R.utils, limma,
grDevices, graphics, stats, utils
S4Vectors, GenomeInfoDb, Biobase (>= 2.33.2), IRanges,
beanplot, RColorBrewer, lattice, nor1mix, siggenes, limma,
preprocessCore, illuminaio, matrixStats (>= 0.50.0), mclust,
genefilter, nlme, reshape, MASS, quadprog, data.table,
GEOquery, stats, grDevices, graphics, utils
parallel, igraph (>= 1.0.1), BiocGenerics, HSMMSingleCell (>=
0.101.5), plyr, cluster, combinat, fastICA, grid, irlba (>=
2.0.0), matrixStats, densityClust, Rtsne, MASS, reshape2,
limma, dplyr, qlcMatrix, pheatmap, stringr, proxy, slam, stats
som, fastICA, tsne, scatterplot3d, pixmap, fdrtool, ape,
biomaRt, Biobase, arules
Biobase, mclust (>= 4.3), caret, e1071, sampling, class,
kernlab, lattice, nnet, randomForest, proxy, FNN, hexbin,
BiocGenerics, stats, dendextend, RColorBrewer, scales, MASS,
knitr, mvtnorm, gtools, plyr, ggplot2, biomaRt, utils,
grDevices, graphics
httr, igraph, plyr, rjson, R.utils, data.table, jsonlite
stats, graphics, utils, grDevices, methods, pracma, maxLik,
Biobase, FNN, minpack.lm, BiocParallel, ropls
AnnotationHub, colourpicker, data.table, digest, dplyr, DT (>=
0.2), fastmatch, ggplot2, grDevices, highcharter (>= 0.5.0),
htmltools, httr, jsonlite, miscTools, plyr, R.utils, shinyjs,
stringr, stats, survival, Sushi, tools, utils, XML, methods
BiocStyle (>= 2.3.20), derfinder (>= 1.1.0), DEFormats,
DESeq2, GenomeInfoDb, GenomicRanges, knitcitations (>= 1.0.1),
knitr (>= 1.6), knitrBootstrap (>= 0.9.0), methods, RefManageR,
rmarkdown (>= 0.9.5), S4Vectors, SummarizedExperiment
fields, mclust, BiocParallel, outliers, ggplot2, EBSeq, arm,
SummarizedExperiment, grDevices, graphics, stats, S4Vectors,
scran
biomaRt, BiocGenerics, data.table, dplyr, edgeR, ggbeeswarm,
grid, limma, Matrix, matrixStats, parallel, plyr, reshape2,
rhdf5, rjson, shiny, shinydashboard, stats, tximport, utils,
viridis
graphics, stats, utils, aroma.light, BiocParallel, class,
cluster, compositions, diptest, EDASeq, scran, edgeR, fpc,
gplots, grDevices, hexbin, limma, matrixStats, mixtools,
RColorBrewer, boot, shiny, miniUI, rhdf5, RUVSeq, DT, NMF,
ggplot2, plotly, reshape2, visNetwork, rARPACK
Biobase, stats, methods, utils, graphics, grDevices, Matrix,
edgeR, limma, dynamicTreeCut, FNN, igraph, shiny, zoo, statmod,
splines, ggplot2, MASS, DT, viridis
methods, IRanges, BSgenome, digest, rtracklayer,
GenomicRanges, Biostrings, shiny (>= 0.13.0), DBI, RSQLite,
plotrix, fields, grid, kohonen, parallel, GenomeInfoDb, class,
S4Vectors, ggplot2, reshape2, gridExtra, jsonlite, DT (>=
0.1.0), RColorBrewer, Rsamtools, GenomicAlignments
fitdistrplus, edgeR, stats, locfit, akima, Biobase, checkmate,
methods, utils, matrixStats, ggplot2, scales, BiocParallel
matrixStats, stats, graphics, utils, limma
GenomeInfoDb, GenomicAlignments, GenomicFeatures, Gviz,
pbapply, Rsamtools, rtracklayer, S4Vectors, scales, tools,
IRanges, AnnotationDbi, grImport
ape, ggplot2, jsonlite, magrittr, methods, rvcheck
mzR (>= 1.1.6), BiocGenerics, ProtGenerics, lattice,
RColorBrewer, plyr, RANN, multtest, MassSpecWavelet (>= 1.5.2),
S4Vectors
gplots, graphics, grDevices, msm, Rlab, stats, sva, utils,
ggplot2
BSgenome, Biostrings, ChIPpeakAnno, IRanges, GenomicRanges,
GenomicAlignments, GenomeInfoDb, GenomicScores, graphics, grid,
limma, Rsamtools, randomForest, rtracklayer, stats, motifStack
R.utils, utils, graphics, stats, data.table, mixtools,
GSEABase, SummarizedExperiment, methods
utils, methods, grDevices, RSQLite, BiocInstaller, curl,
AnnotationDbi (>= 1.31.19), S4Vectors, interactiveDisplayBase,
httr, yaml
SummarizedExperiment, S4Vectors, BiocGenerics, Rcpp (>=
0.11.3), methods, coda, scran, testthat, data.table,
matrixStats, graphics, KernSmooth, grDevices, stats, utils
biocViews (>= 1.33.7), BiocInstaller, stringdist, graph, httr,
tools, optparse, codetools, methods, utils
BiocStyle, bookdown, git2r, httr, knitr, rmarkdown, stringr,
tools, utils
drc, flowCore, ggplot2, graphics, grDevices, grid, gridExtra,
matrixStats, methods, plotly, RColorBrewer, reshape2, stats,
utils
methods, scales, gRbase, data.table (>= 1.9.4), WGCNA, grid,
ggplot2, ggpmisc, ggthemes, ggrepel, sna, clusterProfiler,
fgsea, stringr, knitr, rmarkdown, igraph, DT, htmltools,
pracma, intergraph, grDevices, utils, network, matrixStats,
ggdendro, gridExtra, gtable
Rcpp (>= 0.12.1), S4Vectors, matrixStats, RColorBrewer,
gtools, combinat, GenomeInfoDb (>= 1.11.6), methods,
BiocGenerics, graphics, stats, coda, SummarizedExperiment,
mclust, reshape2, ggplot2, magrittr, purrr, tidyr, dplyr,
tibble
methods, Rcpp, data.table, RColorBrewer, scales, grid, plyr,
knitr, abind, clue, grDevices, utils, pdist, magrittr,
reshape2, dplyr, tidyr, rlang
shiny, ConsensusClusterPlus, RColorBrewer, gplots, plyr,
ggplot2, jsonlite, ape, WGCNA
prettydoc,sva,illuminaio,rmarkdown,IlluminaHumanMethylation450kmanifest,IlluminaHumanMethylationEPICanno.ilm10b2.hg19,
limma,RPMM, DNAcopy, preprocessCore,impute, marray, wateRmelon,
plyr,goseq,missMethyl,
GenomicRanges,qvalue,isva,doParallel,bumphunter,quadprog,shiny,shinythemes,plotly
(>= 4.5.6),RColorBrewer,dendextend, matrixStats,combinat
circlize (>= 0.4.1), GetoptLong, colorspace, RColorBrewer,
GlobalOptions (>= 0.0.10)
maptpx, SQUAREM, slam, plyr(>= 1.7.1), cowplot, gtools,
flexmix, picante, limma, parallel, reshape2, stats, utils,
graphics, grDevices
flowCore (>= 1.43.10), flowWorkspace (>= 3.25.16), openCyto
(>= 1.11.3), XML, data.table, flowUtils (>= 1.35.7), jsonlite,
RBGL, ncdfFlow, Rgraphviz, Biobase, methods, graph, graphics,
utils, base64enc, plyr, ggcyto (>= 1.5.4)
MSnbase, RColorBrewer,stats,preprocessCore,Cairo,png,
lattice,reshape2,gplots,pcaMethods,ggplot2,
limma,knitr,tmvtnorm,norm,impute, imputeLCMD, doParallel,
parallel, foreach,grDevices, graphics, openxlsx, utils, cp4p
(>= 0.3.5), scales, Matrix, vioplot, imp4p (>= 0.5),
highcharter, DAPARdata (>= 1.7.1), siggenes, graph, lme4,
readxl, clusterProfiler, dplyr, tidyr,AnnotationDbi
checkmate, data.table, DESeq2, edgeR (>= 3.13.4),
GenomicRanges, methods, stats, SummarizedExperiment
utils, methods, Biobase, BiocGenerics, ConsensusClusterPlus,
S4Vectors, SummarizedExperiment, DESeq2, ggplot2, cowplot,
ggrepel, Nozzle.R1, edgeR, cluster, logging, dplyr, tidyr,
tibble, reshape, ComplexHeatmap, knitr, grDevices, magrittr,
scales, stats, psych, rlang
ggplot2, dplyr, purrr, readr, tibble, tidyr, broom, Biobase,
SummarizedExperiment, MSnbase, limma, vsn, fdrtool, ggrepel,
ComplexHeatmap, RColorBrewer, circlize, shiny, shinydashboard,
DT, rmarkdown, assertthat, gridExtra, grid, stats, imputeLCMD
Matrix, MASS, RcppRoll,GenomicRanges, IRanges, methods,
mvtnorm, stats, parallel
AnnotationDbi, BiocParallel, DO.db, fgsea, ggplot2, GOSemSim
(>= 2.0.0), graphics, grDevices, grid, igraph, methods, qvalue,
reshape2, rvcheck, S4Vectors, scales, stats, stats4, utils
methods, matrixStats (>= 0.53.1), Matrix, S4Vectors, IRanges
BiocGenerics (>= 0.7.1), methods, graphics, grDevices, stats,
abind, tiff, jpeg, png, locfit, fftwtools (>= 0.9-7), utils,
htmltools, htmlwidgets, RCurl
GenomicRanges, ggplot2, reshape, grid, grDevices, graphics,
methods, parallel, stats, utils, IRanges, GenomeInfoDb,
S4Vectors, GenomicFeatures, TCGAbiolinks (>= 2.5.5), plyr,
Matrix, dplyr, Gviz, ComplexHeatmap, circlize,
MultiAssayExperiment, SummarizedExperiment, biomaRt,
doParallel, downloader, ggrepel, lattice, magrittr, readr,
rvest, xml2, plotly, gridExtra
matrixStats, stats, GetoptLong, Rcpp, utils, locfit, circlize
(>= 0.4.1), IRanges
AnnotationDbi, BiocFileCache, ComplexHeatmap, DESeq2, EDASeq,
GSEABase, GO.db, KEGGREST, KEGGgraph, MASS, ReportingTools,
Rgraphviz, S4Vectors, SPIA, biocGraph, edgeR, geneplotter,
hwriter, limma, methods, rappdirs, safe, topGO
httr, readr, xml2, dplyr, tidyr, magrittr, limma
methods, utils, stats, BiocGenerics, snpStats, ff, Rsamtools,
AnnotationDbi, Biobase, bit, VariantAnnotation, hexbin,
rtracklayer, Gviz, stats4, S4Vectors (>= 0.9.25), IRanges,
GenomeInfoDb, GenomicRanges (>= 1.29.6), iterators, Biostrings,
ROCR, biglm, ggplot2, reshape2
methods, utils, stats, tools, DBI, RSQLite (>= 2.0), RMySQL,
RCurl, XVector, Biostrings (>= 2.23.3), rtracklayer (>=
1.29.24), biomaRt (>= 2.17.1), Biobase (>= 2.15.1)
Rsamtools, rtracklayer, GenomicRanges (>= 1.29.6), IRanges,
BiocGenerics (>= 0.15.3), data.table, stringr, GenomeInfoDb,
ggplot2, grid, gridExtra, methods, igraph, S4Vectors (>=
0.13.13), dplyr, Gviz, Biobase, graphics, stats, utils
Biobase, edgeR, grDevices, jsonlite, methods, stats,
S4Vectors, utils
Biostrings, GenomeInfoDb, GenomicRanges, IRanges, httr, rjson,
Rsamtools, S4Vectors (>= 0.9.25), Biobase, methods, utils
data.table, ggplot2, gridExtra, mgcv, stats, InteractionSet,
GenomicRanges, IRanges, S4Vectors, BiocParallel, QDNAseq,
KernSmooth, methods, utils, graphics, pheatmap, gtools
methods, utils, HilbertVis, png, grDevices, circlize (>=
0.3.3)
utils, methods, data.table, httr, Rlabkey (>= 2.1.136),
Biobase, pheatmap, ggplot2, scales, stats, gtools, gplots,
reshape2, plotly, heatmaply (>= 0.7.0), rjson, rmarkdown,
preprocessCore, parallel
IRanges, S4Vectors (>= 0.13.13), GenomeInfoDb, BiocGenerics,
methods, Matrix, Rcpp
Rcpp (>= 0.12.7), SpatialTools, gplots, spatstat, tiff,
RColorBrewer, methods, grDevices, graphics, stats, utils,
data.table, ggplot2, dplyr, magrittr, tibble
methods, BSgenome, plyr, reshape2, gridExtra, Biostrings,
IRanges, GenomicRanges, DRIMSeq, RColorBrewer, rtracklayer,
ggplot2, VennDiagram, DBI, grDevices, graphics, stats, utils,
GenomeInfoDb, grid, tximport, edgeR
BiocGenerics, S4Vectors, IRanges, GenomicRanges, data.table,
reshape2, utils, stats
ggplot2, Matrix, doSNOW, NMF, RColorBrewer, cluster, parallel,
foreach, doParallel, matrixcalc
GenomicRanges, SNPassoc, limma, DMRcate, snpStats, vegan,
BiocGenerics, minfi, IRanges, S4Vectors, methods, doParallel,
parallel, ggplot2 (>= 2.0.0), permute, Gviz, missMethyl, isva,
SummarizedExperiment, SmartSVA, graphics, stats, utils,
matrixStats
AnnotationDbi, Biobase, BiocParallel, data.table, edgeR,
futile.logger, ggdendro, ggplot2, GO.db, GOstats, graph,
graphics, grDevices, grid, GSEABase, limma, matrixStats, mGSZ,
org.Hs.eg.db, RBGL, reshape2, Rgraphviz, RJSONIO, stats, utils,
vegan
plyr, IRanges, preprocessCore, vsn, grid, stats4, affy,
impute, pcaMethods, MALDIquant (>= 1.16), mzID (>= 1.5.2),
digest, lattice, ggplot2, S4Vectors, XML, Rcpp
Rcpp, lme4, marray, limma, gplots, ggplot2, methods, grid,
ggrepel, preprocessCore, MSnbase, reshape2, survival,
minpack.lm, utils, grDevices, graphics, stats, doSNOW, snow,
foreach, data.table, MASS, dplyr, tidyr, purrr, stringr, broom
methods, GenomicRanges (>= 1.25.93), BiocGenerics,
SummarizedExperiment (>= 1.3.81), S4Vectors, IRanges, Biobase,
reshape2, shinydashboard, shiny, stats, tidyr, utils
GEOmetadb, RSQLite, SRAdb, data.table, methods, tools, utils,
AnnotationDbi
goseq, Biobase, DOSE, reshape2, igraph, org.Hs.eg.db,
org.Mm.eg.db, BiocGenerics, AnnotationDbi, JunctionSeq,
BiasedUrn, GO.db,gdata, geneLenDataBase, grDevices, graphics,
stats, utils, VennDiagram, RColorBrewer, ensembldb,
AnnotationHub, S4Vectors, dplyr, plotly, webshot, htmlwidgets ,
mgcv ,gridExtra, grid ,gplots, tibble
DAPAR (>= 1.9.15), DAPARdata (>= 1.7.1), rhandsontable,
data.table, shinyjs, DT, shiny, shinyAce, highcharter,
htmlwidgets, webshot
GenomicRanges (>= 1.20.3), IRanges (>= 2.2.1), RColorBrewer,
S4Vectors, data.table, grDevices, graphics, stats, utils,
SummarizedExperiment, GenomeInfoDb, GenomicFeatures, Rsamtools,
Biostrings, BiocGenerics, rtracklayer, ggplot2, futile.logger,
VGAM, edgeR, tools, limma
Biobase, BiocGenerics, data.table (>= 1.9.4), GenomicRanges,
GenomeInfoDb, httr, IRanges, limma (>= 3.18), methods, plyr,
RaggedExperiment, RCircos, RCurl, RJSONIO, S4Vectors,
SummarizedExperiment, survival, XML
survival, RColorBrewer, grDevices, graphics, stats, RTNduals,
png, utils
gRain, snpStats, kinship2, methods, stats, utils
stats, methods, graphics, grDevices, parallel, quantreg,
cluster, moments, data.table, BiocParallel,
SummarizedExperiment, S4Vectors, ggplot2, forcats
AnnotationDbi, BiocGenerics, Biostrings, GenomicAlignments,
GenomicFeatures, GenomeInfoDb, RUnit, S4Vectors (>= 0.9.39),
grDevices, graphics, igraph, parallel, rtracklayer (>= 1.37.2),
stats
Biobase, stats, ppcor, logging, foreach, doRNG, data.table,
bigmemory, MASS, expm, gRbase, glmnet, igraph, iterators,
grDevices, graphics, stats, methods, gdsfmt, GenomicRanges,
IRanges, S4Vectors, GWASExactHW, Biobase, logistf, dplyr, tidyr
utils, stats, tools, Matrix, BiocGenerics (>= 0.15.3),
S4Vectors (>= 0.13.13), IRanges (>= 2.11.17), GenomeInfoDb (>=
1.13.1)
ELMER (>= 2.0.0), pathview, parallel, maftools, shiny (>=
0.14.1), downloader (>= 0.4), grid, DT, plotly, readr, stringr
(>= 1.1.0), SummarizedExperiment, ggrepel, data.table,
shinyFiles (>= 0.6.2), ggplot2 (>= 2.1.0), clusterProfiler,
TCGAbiolinks (>= 2.5.5), shinyjs (>= 0.7), colourpicker,
shinyBS (>= 0.61)
downloader (>= 0.4), survminer, grDevices, dplyr, gridExtra,
graphics, tibble, grid, GenomicRanges, XML (>= 3.98.0),
data.table, EDASeq (>= 2.0.0), edgeR (>= 3.0.0), jsonlite (>=
1.0.0), plyr, knitr, methods, biomaRt, ggplot2, ggthemes,
survival, stringr (>= 1.0.0), IRanges, scales, rvest (>=
0.3.0), stats, utils, selectr, S4Vectors, ComplexHeatmap (>=
1.10.2), R.utils, SummarizedExperiment (>= 1.4.0), genefilter,
ConsensusClusterPlus, readr, RColorBrewer, doParallel,
GenomeInfoDb, GenomicFeatures, parallel, tools, sva, limma,
xml2, httr (>= 1.2.1), matlab, circlize, ggrepel (>= 0.6.3)
arules, fields, GenomicRanges, graphics, grDevices, stringr,
methods, stats
GenomicRanges, S4Vectors, grDevices, graphics, stats, utils,
IRanges
biobroom, broom, data.table, doParallel, foreach,
futile.logger, ggplot2, grDevices, gridExtra, grid, knitr,
limma, MASS, mefa, nls2, openxlsx (>= 2.4.0), parallel, plyr,
purrr, RColorBrewer, RCurl, reshape2, rmarkdown, sme, splines,
stats, stringr, utils, VennDiagram, VGAM
RSQLite, lassopv, randomForest, flare, vbsr, foreach,
doParallel, RPostgreSQL, methods, DBI, GenomicRanges
utils, Biobase, S4Vectors (>= 0.9.25), IRanges (>= 2.3.23),
RBGL, graph, AnnotationDbi, BiocParallel, Biostrings (>=
2.33.11), GenomeInfoDb (>= 1.3.6), GenomicRanges (>= 1.19.13),
SummarizedExperiment, GenomicFeatures, Rsamtools (>= 1.17.8),
BSgenome, Gviz, shiny, GenomicScores (>= 1.0.0)
affy, limma, GOstats, gcrma, splines, xtable, AnnotationDbi,
ggplot2, gplots, oligoClasses, ReportingTools, hwriter,
lattice, S4Vectors, edgeR, RSQLite, BiocGenerics, DBI
emdbook, SummarizedExperiment, GenomicRanges, methods, stats,
utils
affy, affyPLM (>= 1.27.3), beadarray, Biobase, Cairo (>=
1.4-6), genefilter, graphics, grDevices, grid, gridSVG (>=
1.4-3), Hmisc, hwriter, lattice, latticeExtra, limma, methods,
RColorBrewer, setRNG, stats, utils, vsn (>= 3.23.3), XML
utils, Rhdf5lib, HDF5Array, DelayedArray, Rcpp (>= 0.12.14),
rhdf5, methods
DT (>= 0.2), dplyr (>= 0.7.2), shiny (>= 1.0.5), AlgDesign (>=
1.1.7.3), import (>= 1.1.0), methods, shinythemes, Biobase,
geNetClassifier, AnnotationFuncs, org.Hs.eg.db, DOSE,
clusterProfiler, reactome.db, ReactomePA, DiagrammeR(>= 0.7),
visNetwork, htmlwidgets, plyr, tibble
utils, XML, RCurl, AnnotationDbi, progress, stringr, httr
dplyr, magrittr, ggplot2, superheat, wesanderson, doFuture,
future, stats, Matrix, methods, DBI, limma, BiocParallel,
SummarizedExperiment, biotmleData (>= 1.1.1), SuperLearner,
tmle
IRanges (>= 2.11.16), GenomeInfoDb, scales, stats, graphics,
Biobase, locfit, gtools, data.table, S4Vectors, R.utils (>=
2.0.0), matrixStats (>= 0.50.0), permute, limma, DelayedArray,
HDF5Array
AnnotationDbi, hwriter, GSEABase, Category (>= 2.33.1),
GOstats, annotate, colorspace, graph, RCy3
methods, readr, grid, Rsamtools, GenomeInfoDb,
GenomicAlignments, RColorBrewer, graphics, AnnotationDbi,
RCircos, org.Hs.eg.db, rmarkdown, graph, Rgraphviz, DT, plyr,
dplyr, BiocStyle, ArgumentCheck
AnnotationDbi, BiocGenerics, chipenrich.data, GenomeInfoDb,
GenomicRanges, grDevices, grid, IRanges, lattice, latticeExtra,
methods, mgcv, org.Dm.eg.db, org.Dr.eg.db, org.Hs.eg.db,
org.Mm.eg.db, org.Rn.eg.db, parallel, plyr, rms, rtracklayer,
S4Vectors, stats, stringr, utils
methods, NMF, RColorBrewer, ape, phylobase, cluster, stats,
limma, dendextend, howmany, locfdr, matrixStats, graphics,
parallel, RSpectra, kernlab, stringr
Biobase, GSVA, gdata, genefu, limma, matrixStats,
randomForest, stats, utils
Rsamtools, edgeR, limma, GenomicFeatures, AnnotationDbi,
methods, S4Vectors, IRanges, GenomeInfoDb, BiocGenerics,
Rhtslib, stats, Rcpp
utils, tidyr, magrittr, methods, S4Vectors
viridis, methods, shiny, graphics, stats, grDevices,
S4Vectors, flowCore, Biobase, Rcpp
DT, ggplot2, RColorBrewer, annotate, gplots, AnnotationDbi,
DESeq2, DOSE, igraph, grDevices, graphics, stats, utils,
GenomicRanges, IRanges, S4Vectors, SummarizedExperiment,
stringi, reshape2, baySeq, d3heatmap, org.Hs.eg.db,
org.Mm.eg.db, limma, edgeR, clusterProfiler, V8, methods, sva,
shinydashboard, RCurl, pathview, shinyBS, googleAuthR
methods, graphics, grDevices, utils, stats, Matrix, Rcpp (>=
0.10.3), RcppEigen, Biobase, BiocGenerics, ggplot2, Hmisc, VIM,
proxy, igraph, smoother, scales, scatterplot3d
Rsamtools, Rhtslib, Biostrings, BSgenome, rhdf5, edgeR, limma,
csaw, locfit, methods, IRanges, S4Vectors, GenomeInfoDb,
BiocGenerics, grDevices, graphics, stats, utils, Rcpp
methods, RSQLite (>= 1.1), DBI, Biobase, GenomeInfoDb,
AnnotationDbi (>= 1.31.19), rtracklayer, S4Vectors,
AnnotationHub, Rsamtools, IRanges (>= 2.11.16), ProtGenerics,
Biostrings, curl
epivizrData (>= 1.5.1), epivizrServer, htmltools, rjson,
methods
rtracklayer, S4Vectors, BiocGenerics, GenomicRanges,
SummarizedExperiment, ggplot2, Biobase, shiny, foreach,
AnnotationDbi
Rcpp (>= 0.12.11), methods, knitr, Rbowtie2, rtracklayer,
ggplot2, Biostrings, ChIPseeker, clusterProfiler, igraph,
rJava, DiagrammeR, magrittr, digest, BSgenome, AnnotationDbi,
GenomicFeatures, R.utils, GenomeInfoDb, BiocGenerics,
S4Vectors, IRanges, rmarkdown, tools, VennDiagram, grid,
JASPAR2016, TFBSTools, grDevices, graphics, stats, utils,
parallel, corrplot, BiocInstaller
flowCore, graphics, car, sp, rgeos, gplots, RFOC, GEOmap,
flowWorkspace (>= 3.21.5), methods, grDevices
Biobase, BiocGenerics, graph, graphics, grDevices, lattice,
methods, stats, stats4, utils, RBGL, XML, tools, gridExtra,
Rgraphviz, data.table, dplyr, latticeExtra, Rcpp, RColorBrewer,
stringr, scales, flowViz
methods, snpStats, BiocGenerics, S4Vectors (>= 0.9.25),
IRanges, GenomeInfoDb, GenomicFiles, GenomicRanges,
SummarizedExperiment, VariantAnnotation, Biobase, BatchJobs,
gQTLBase, limma, mgcv, dplyr, AnnotationDbi, GenomicFeatures,
ggplot2, reshape2, doParallel, foreach, ffbase, BBmisc,
beeswarm, HardyWeinberg, graphics, stats, utils, shiny,
ldblock, plotly, erma, ggbeeswarm
AnnotationDbi, data.table, dplyr, graphics, networkD3,
org.Ag.eg.db, org.Bt.eg.db, org.Ce.eg.db, org.Cf.eg.db,
org.Dm.eg.db, org.Dr.eg.db, org.Gg.eg.db, org.Hs.eg.db,
org.Mm.eg.db, org.Mmu.eg.db, org.Pt.eg.db, org.Sc.sgd.db,
org.Ss.eg.db, org.Xl.eg.db, RColorBrewer, SnowballC, tm, utils,
wordcloud
Biostrings, BSgenome, data.table, GenomeInfoDb, GenomicRanges
(>= 1.23.26), GenomicAlignments, S4Vectors (>= 0.9.25),
ggplot2, gridBase, impute, IRanges, matrixStats, methods,
parallel, plotrix, plyr, readr, reshape2, Rsamtools (>=
1.25.2), seqPattern, rtracklayer, RUnit, Rcpp (>= 0.12.14)
grid, grDevices, graphics, stats, utils, gridExtra, scales,
reshape2, gtable, Hmisc, biovizBase (>= 1.23.3), Biobase,
S4Vectors (>= 0.13.13), IRanges (>= 2.11.16), GenomeInfoDb (>=
1.1.3), GenomicRanges (>= 1.29.14), SummarizedExperiment,
Biostrings, Rsamtools (>= 1.17.28), GenomicAlignments (>=
1.1.16), BSgenome, VariantAnnotation (>= 1.11.4), rtracklayer
(>= 1.25.16), GenomicFeatures (>= 1.29.11), OrganismDbi,
GGally, ensembldb (>= 1.99.13), AnnotationDbi, AnnotationFilter
ape, grDevices, grid, magrittr, methods, rvcheck, scales,
tidyr, utils
methods, BiocGenerics, S4Vectors (>= 0.9.25), IRanges,
GenomeInfoDb, GenomicRanges (>= 1.29.6), snpStats, Biostrings,
Rsamtools, rtracklayer, gQTLstats, Gviz, VariantAnnotation,
AnnotationHub, AnnotationDbi, GenomicFeatures, graph, ggbio,
ggplot2, SummarizedExperiment
BiocGenerics (>= 0.7.5), IRanges, S4Vectors, GenomicRanges,
Biobase, DESeq2, reshape, tidyr, readr, dplyr, RColorBrewer,
gplots, methods, ggplot2, gtools, gridExtra, grid, grDevices,
graphics, stats, GGally, gamlss, lme4, gamlss.dist
regioneR, GenomicRanges, IRanges, Rsamtools, stats, graphics,
memoise, rtracklayer, GenomeInfoDb, S4Vectors, biovizBase,
digest, bezier
Matrix, snpStats, erma, VariantAnnotation, GenomeInfoDb,
Rsamtools, GO.db, GenomicFiles (>= 1.13.6)
data.table, ggplot2(>= 2.0), cowplot, cometExactTest,
RColorBrewer, NMF, ggrepel, methods, ComplexHeatmap, mclust,
VariantAnnotation, Biostrings, Rsamtools, rjson, grid,
wordcloud, grDevices, changepoint, gridExtra, survival
Rcpp (>= 0.12.4.5), methods, utils, grDevices, stats,
GenomeInfoDb, IRanges, Biostrings, reshape2, minpack.lm
stats, cluster, methods, ggplot2, gridExtra, superheat,
wesanderson, magrittr, dplyr, gtools, tmle, future, doFuture,
BiocParallel, BiocGenerics, SummarizedExperiment, GenomeInfoDb,
bumphunter, IRanges, limma, minfi
corpcor, parallel, igraph, ProNet, clusterProfiler,
ReactomePA, DOSE, survival, grDevices, graphics, stats,
varhandle, utils
dplyr, reshape2, stats, tidyr, utils, vegan
XML, scales, htmlwidgets,grDevices, stats, utils
plyr, foreach, parallel, doSNOW, stringr, mzR, reshape2,
fastcluster, ggplot2, DBI, RSQLite
Biobase, BiocGenerics (>= 0.13.6), ProtGenerics (>= 1.9.1)
BiocGenerics (>= 0.3.2), Biobase (>= 2.17.8), methods,
graphics, IRanges (>= 2.5.17), GenomicRanges (>= 1.23.7),
SummarizedExperiment, Biostrings (>= 2.23.6), affyio (>=
1.23.2), ff, foreach, BiocInstaller, utils, S4Vectors (>=
0.9.25), RSQLite, DBI
Biobase, S4Vectors, methods, AnnotationDbi, stats, utils,
shiny
Biobase, mclust (>= 4.3), caret, e1071, sampling, class,
kernlab, Rtsne (>= 0.13), lattice, nnet, randomForest, proxy,
FNN, hexbin, BiocGenerics, stats, dendextend, RColorBrewer,
scales, MASS, knitr, mvtnorm, gtools, plyr, ggplot2, biomaRt,
utils, grDevices, graphics
AnnotationHub, cluster, colourpicker, data.table, digest,
dplyr, DT (>= 0.2), edgeR, fastICA, fastmatch, ggplot2,
ggrepel, grDevices, highcharter (>= 0.5.0), htmltools, httr,
jsonlite, limma, miscTools, pairsD3, plyr, Rcpp (>= 0.12.14),
R.utils, shinyjs, stringr, stats, survival, tools, utils, XML,
xtable, methods
stringr, RCurl, igraph, ggplot2, reshape2, grid, parallel,
biomaRt, BgeeDB, topGO, BiocInstaller, Biobase, labeling, GO.db
memoise, GenomicRanges, BSgenome, rtracklayer, parallel,
graphics, stats, utils, methods, GenomeInfoDb, IRanges,
S4Vectors
utils, stats, methods, S4Vectors, DelayedArray, reshape2,
AnnotationDbi, DBI, GO.db, rhdf5client, dplyr (>= 0.7.1),
magrittr, bigrquery, ExperimentHub, AnnotationHub
methods, utils, stats, lsr, FactoMineR, stringr, circlize,
corrplot, ggplot2, reshape2, pryr, S4Vectors, imputeLCMD,
scatterplot3d, glmnet, gridExtra, grid, Hmisc, gplots, gtools,
scales, lme4, grDevices, graphics, ggrepel, psygenet2r, mice
Rhtslib, biomaRt, GGally, MASS, mclust, Rcpp (>= 0.11.3),
reshape, BiocGenerics, robustbase, scales, utils, stats,
S4Vectors, SummarizedExperiment
biomaRt, BiocGenerics, data.table, dplyr, edgeR, ggbeeswarm,
grid, limma, Matrix, matrixStats, methods, parallel, plyr,
reshape2, rhdf5, rjson, S4Vectors, shiny, shinydashboard,
stats, tximport, utils, viridis, Rcpp
SummarizedExperiment, S4Vectors, BiocGenerics, Rcpp (>=
0.12.14), stats, methods, utils, graphics, grDevices, Matrix,
scater, edgeR, limma, dynamicTreeCut, FNN, igraph, shiny, zoo,
statmod, ggplot2, DT, viridis
akima, BiocGenerics, BiocParallel, checkmate, edgeR,
fitdistrplus, ggplot2, locfit, matrixStats, methods, scales,
stats, SummarizedExperiment, utils
GenomeInfoDb, GenomicAlignments, GenomicFeatures, Gviz,
pbapply, Rsamtools, rtracklayer, S4Vectors, scales, tools,
IRanges, AnnotationDbi, grImport, htmlwidgets
biomaRt, data.table, doSNOW, foreach, graphics, grDevices,
igraph, limma, parallel, progress, RedeR, snow, stats, topGO
RSQLite, lassopv, randomForest, flare, vbsr, BiocParallel,
RPostgreSQL, methods, RMySQL, DBI, BSgenome, stringr,
BSgenome.Hsapiens.UCSC.hg38, BSgenome.Hsapiens.UCSC.hg19,
BSgenome.Mmusculus.UCSC.mm10, SNPlocs.Hsapiens.dbSNP150.GRCh38,
org.Hs.eg.db, Biostrings, GenomicRanges, biomaRt, AnnotationDbi
copula, glmnet, BiocParallel, softImpute, stats, genefilter,
edgeR
BiocParallel, ggplot2, grDevices, gridExtra, methods, plyr,
quadprog, ropls, speaq, stats, SummarizedExperiment, utils, zoo
BSgenome, Biostrings, ChIPpeakAnno, IRanges, GenomicRanges,
GenomicAlignments, GenomeInfoDb, GenomicScores, graphics, grid,
limma, Rsamtools (>= 1.31.2), randomForest, rtracklayer, stats,
motifStack, preseqR, utils, KernSmooth
data.table, graphics, grDevices, GSEABase, methods, mixtools,
R.utils, shiny, stats, SummarizedExperiment, utils
methods, BiocGenerics, AnnotationDbi, BSgenome (>= 1.47.3),
VariantAnnotation (>= 1.25.11), Biostrings (>= 2.47.6),
S4Vectors (>= 0.17.25), IRanges (>= 2.13.12), Rsamtools (>=
1.31.2), GenomicFeatures (>= 1.31.3), Gviz, lattice,
latticeExtra, gridExtra, seqinr, GenomeInfoDb, nlme
methods, utils, grDevices, graphics, stats, foreach,
doParallel, S4Vectors, GenomeInfoDb, IRanges, Rsamtools,
bamsignals, DNAcopy, ecp, Biostrings, GenomicAlignments,
ggplot2, reshape2, ggdendro, ggrepel, ReorderCluster, mclust
GenomicFeatures, Rsamtools, rtracklayer, BiocGenerics,
jsonlite, BiocInstaller, biocViews, AnnotationDbi, Biobase,
Biostrings, DBI, GEOquery, GenomeInfoDb (>= 1.15.4),
OrganismDbi, RSQLite, rBiopaxParser, AnnotationForge,
futile.logger (>= 1.3.0), XML, RCurl
BiocGenerics, methods, coda, data.table, ggplot2, graphics,
grDevices, KernSmooth, MASS, matrixStats, Rcpp (>= 0.11.3),
S4Vectors, scran, stats, SummarizedExperiment, testthat, utils
ComplexHeatmap, S4Vectors, bigrquery, shiny, httr, rjson,
dplyr, magrittr, grid, utils, DT
BiocStyle, bookdown, devtools, git2r, httr, knitr, rmarkdown,
rstudioapi, stringr, tools, utils
beanplot, BiocGenerics, BiocParallel, BSgenome, data.table,
DelayedArray, GenomeInfoDb, GenomicAlignments, GenomicRanges
(>= 1.23.16), ggplot2 (>= 2.2.0), gtools, IRanges (>= 2.5.27),
KernSmooth, memoise, MultiAssayExperiment, plyr, Rsamtools,
reshape, rtracklayer, S4Vectors, som, stringdist, stringi,
SummarizedExperiment, utils, vegan, VGAM
Biobase, circlize, ComplexHeatmap, ConsensusClusterPlus,
dplyr, drc, DT, flowCore, FlowSOM, ggplot2, ggrepel, graphics,
grDevices, grid, gridExtra, htmltools, limma, magrittr,
matrixStats, methods, nnls, plotly, RColorBrewer, reshape2,
Rtsne, S4Vectors, scales, shiny, shinydashboard, shinyjs,
shinyBS, stats, SummarizedExperiment, tidyr, utils
Rcpp (>= 0.12.1), S4Vectors, matrixStats, RColorBrewer,
gtools, combinat, GenomeInfoDb (>= 1.11.6), methods,
BiocGenerics, graphics, stats, coda, SummarizedExperiment,
mclust, reshape2, ggplot2, magrittr, purrr, tidyr, dplyr,
tibble, scales
grDevices, grid, irlba, lattice, signal, sp, stats4, utils
prettydoc,Hmisc,globaltest,sva,illuminaio,rmarkdown,IlluminaHumanMethylation450kmanifest,IlluminaHumanMethylationEPICanno.ilm10b2.hg19,
limma,RPMM, DNAcopy, preprocessCore,impute, marray, wateRmelon,
plyr,goseq,missMethyl,
GenomicRanges,qvalue,isva,doParallel,bumphunter,quadprog,shiny,shinythemes,plotly
(>= 4.5.6),RColorBrewer,dendextend, matrixStats,combinat
ChIC.data (>= 0.99), caTools, methods,GenomicRanges, IRanges,
parallel, caret, grDevices, stats, utils, graphics, S4Vectors,
BiocGenerics
AnnotationDbi, BiocGenerics, boot, enrichplot, IRanges (>=
2.13.12), GenomeInfoDb, GenomicRanges (>= 1.31.8),
GenomicFeatures (>= 1.31.3), ggplot2 (>= 2.2.0), gplots,
graphics, grDevices, grid, gridBase, gtools, methods, plotrix,
dplyr, parallel, magrittr, RColorBrewer, rtracklayer, S4Vectors
(>= 0.17.25), stats, TxDb.Hsapiens.UCSC.hg19.knownGene, UpSetR,
utils
flowCore (>= 1.43.10), flowWorkspace (>= 3.28.1), openCyto (>=
1.11.3), XML, data.table, flowUtils (>= 1.35.7), jsonlite,
RBGL, ncdfFlow, Rgraphviz, Biobase, methods, graph, graphics,
utils, base64enc, plyr, grDevices, ggcyto (>= 1.8.2)
MSnbase, RColorBrewer,stats,preprocessCore,Cairo,png,
lattice,reshape2,gplots,pcaMethods,ggplot2,
limma,knitr,tmvtnorm,norm,impute, doParallel, stringr,
parallel, foreach,grDevices, graphics, openxlsx, utils, cp4p
(>= 0.3.5), scales, Matrix, vioplot, imp4p (>= 0.5),
highcharter (>= 0.5.0), DAPARdata (>= 1.10.2), siggenes, graph,
lme4, readxl, clusterProfiler, dplyr, tidyr,AnnotationDbi,
tidyverse, imputeLCMD
utils, methods, Biobase, BiocGenerics, circlize,
ComplexHeatmap, cowplot, ConsensusClusterPlus, cluster, DESeq2,
dplyr, edgeR, ggplot2, grid, ggrepel, grDevices, knitr,
logging, magrittr, Nozzle.R1, psych, reshape, rlang, scales,
stats, stringr, S4Vectors, SummarizedExperiment, tidyr, tibble
ggplot2, dplyr, purrr, readr, tibble, tidyr,
SummarizedExperiment, MSnbase, limma, vsn, fdrtool, ggrepel,
ComplexHeatmap, RColorBrewer, circlize, shiny, shinydashboard,
DT, rmarkdown, assertthat, gridExtra, grid, stats, imputeLCMD,
cluster
BiocGenerics, ChIPpeakAnno, data.table, DelayedArray,
GenomeInfoDb, GenomicAlignments, glue, IRanges, plyr, Rcpp (>=
0.12.13), rtracklayer, S4Vectors, SummarizedExperiment, tools,
utils
DESeq2, limma, EDASeq, RColorBrewer, sva, Hmisc, pheatmap,
FactoMineR, corrplot, randomForest, e1071, caret, MASS,
lubridate, plsVarSel, kknn, FSelector, methods, stats, utils,
graphics, grDevices, reshape2, ineq, arm, pls, RSNNS
methods, matrixStats (>= 0.53.1), Matrix, S4Vectors (>=
0.17.5), IRanges
biomaRt, data.table, utils, stats, Biostrings,
SummarizedExperiment, VariantAnnotation, AnnotationDbi,
GenomeInfoDb, IRanges, GenomicRanges
S4Vectors, Matrix, methods, utils, stats, edgeR, Rcpp, rhdf5
GenomicRanges, ggplot2, reshape, grid, grDevices, graphics,
methods, parallel, stats, utils, IRanges, GenomeInfoDb,
S4Vectors, GenomicFeatures, TCGAbiolinks (>= 2.5.5), plyr,
Matrix, dplyr, Gviz, ComplexHeatmap, circlize,
MultiAssayExperiment, SummarizedExperiment, biomaRt,
doParallel, downloader, ggrepel, lattice, magrittr, readr,
rvest, xml2, plotly, gridExtra, rmarkdown, stringr
AnnotationDbi, BiocFileCache, ComplexHeatmap, DESeq2, EDASeq,
GSEABase, GO.db, KEGGREST, KEGGgraph, MASS, ReportingTools,
Rgraphviz, S4Vectors, SPIA, biocGraph, edgeR, geneplotter,
graphite, hwriter, limma, methods, pathview, rappdirs, safe,
topGO
tools, S4Vectors (>= 0.17.43), IRanges, SNPRelate, SeqArray
Biobase, BiocGenerics, GWASTools, gdsfmt, GenomicRanges,
graph, IRanges, S4Vectors, SeqArray, SeqVarTools, dplyr,
graphics, grDevices, Matrix, methods, stats, utils
Rcpp (>= 0.11.5), mapplots (>= 1.5), gtools (>= 3.5.0),
GenomicRanges (>= 1.28.4), AnnotationDbi, utils, grDevices,
graphics, stats,
AnnotationDbi, AnnotationHub, BiocFileCache, BiocParallel,
edgeR, EnrichmentBrowser, ExperimentHub, GEOquery, grDevices,
graphics, KEGGandMetacoreDzPathwaysGEO, KEGGdzPathwaysGEO,
methods, rappdirs, S4Vectors, stats, utils
splancs, mvoutlier, methods, stats, diptest, flowCore, flowFP,
stats, httr, xml2, jsonlite, utils, lazyeval, readr,
GenomicRanges, IRanges, dplyr, rappdirs, SummarizedExperiment,
S4Vectors
methods, BiocGenerics (>= 0.21.2), Rcpp (>= 0.11.2), IRanges
(>= 2.13.13), data.table, stats4
utils, tools, BiocGenerics (>= 0.25.1), S4Vectors, IRanges
STRINGdb, Biostrings, igraph, graphics, utils, seqinr,
BiocFileCache
utils, R6, data.table, curl, httr, Rlabkey (>= 2.1.136),
Biobase, pheatmap, ggplot2, scales, stats, gtools, gplots,
reshape2, plotly, heatmaply (>= 0.7.0), rjson, rmarkdown,
preprocessCore, parallel
IRanges, S4Vectors (>= 0.17.21), GenomeInfoDb, BiocGenerics,
methods, Matrix, Rcpp
methods, BSgenome, plyr, reshape2, gridExtra, Biostrings,
IRanges, GenomicRanges, DRIMSeq, RColorBrewer, rtracklayer,
ggplot2, VennDiagram, DBI, grDevices, graphics, stats, utils,
GenomeInfoDb, grid, tximport, edgeR, futile.logger
cgdsr, parallel, stringr, reshape2, data.table, RColorBrewer,
methods, LowMACAAnnotation, BiocParallel, motifStack,
Biostrings, httr
ggplot2, Matrix, doSNOW, NMF, RColorBrewer, cluster, parallel,
foreach, doParallel, matrixcalc, dendextend, sigclust
ggExtra, ggsci, ggrepel, clusterProfiler, png, data.table,
pheatmap, RColorBrewer, sva, GOstats, Category, DOSE, biomaRt,
grid
Biobase, BiocGenerics, S4Vectors, data.table, ggplot2, plyr,
stringr, abind, methods, parallel, reshape2, stats, stats4,
graphics, utils, SummarizedExperiment(>= 1.5.3)
GenomicRanges, SNPassoc, limma, DMRcate, snpStats, vegan,
BiocGenerics, minfi, IRanges, S4Vectors, methods, parallel,
ggplot2 (>= 2.0.0), permute, Gviz, missMethyl, isva,
SummarizedExperiment, SmartSVA, graphics, stats, utils,
matrixStats
gdata, pls, sfsmisc, MASS, rpart, rda, genefilter, fpc, ggvis,
shiny, gbm, RColorBrewer, hwriter, threejs (>= 0.2.2), mlbench,
stats4, tools, grDevices, graphics, stats
IRanges (>= 2.13.28), plyr, preprocessCore, vsn, grid, stats4,
affy, impute, pcaMethods, MALDIquant (>= 1.16), mzID (>=
1.5.2), digest, lattice, ggplot2, S4Vectors, XML, scales, MASS,
Rcpp
lme4, marray, limma, gplots, ggplot2, methods, grid, ggrepel,
preprocessCore, reshape2, survival, minpack.lm, utils,
grDevices, graphics, stats, doSNOW, snow, foreach, data.table,
MASS, dplyr, tidyr, stringr, randomForest
beanplot (>= 1.2), gplots (>= 3.0.1), RColorBrewer (>= 1.1),
stats (>= 3.4), SummarizedExperiment (>= 1.6.5), utils (>= 3.4)
methods, GenomicRanges (>= 1.25.93), BiocGenerics,
SummarizedExperiment (>= 1.3.81), S4Vectors (>= 0.17.5),
IRanges, Biobase, stats, tidyr, utils
utils, ape, Biostrings, GenomicRanges, IRanges, methods, topGO
GEOmetadb, RSQLite, data.table, methods, tools, utils,
AnnotationDbi, RCurl, stats
Biobase, BiocInstaller, GenomicRanges (>= 1.31.13), graph,
IRanges, RBGL, DBI, S4Vectors (>= 0.9.25), stats
DAPAR (>= 1.12.10), DAPARdata (>= 1.10.2), rhandsontable,
data.table, shinyjs, DT, shiny, shinyBS, shinyAce, highcharter,
htmlwidgets, webshot, R.utils, shinythemes, XML,later
GenomicRanges (>= 1.20.3), IRanges (>= 2.2.1), RColorBrewer,
S4Vectors, data.table, grDevices, graphics, stats, utils,
SummarizedExperiment, GenomeInfoDb, GenomicFeatures, Rsamtools,
Biostrings, BiocGenerics, rtracklayer, ggplot2, gridExtra,
futile.logger, VGAM, tools, rhdf5, Matrix
httr, methods, RJSONIO, XML, utils, BiocGenerics, igraph,
stats, graph
methods, httpuv (>= 1.4.0), BiocGenerics, base64enc, utils
Biobase, BiocGenerics, data.table (>= 1.9.4), GenomicRanges,
GenomeInfoDb, httr, IRanges, limma (>= 3.18), methods, plyr,
RaggedExperiment, RCircos, RCurl, RJSONIO, S4Vectors, stringr,
SummarizedExperiment, survival, XML
RedeR, minet, viper, mixtools, snow, limma, data.table,
IRanges, igraph, S4Vectors
survival, RColorBrewer, grDevices, graphics, stats, utils,
scales
R.utils, Biobase, rpx, biocViews, BiocInstaller,
interactiveDisplay, DT, AnnotationDbi, shiny
BiocGenerics (>= 0.25.1), Biostrings, IRanges, methods,
S4Vectors, knitr (>= 1.7), BiocStyle, plyr, markdown, grid,
reshape2, digest, Rcpp (>= 0.11.6), biovizBase, shiny,
Rsamtools, GenomicAlignments, GenomicFiles
stats, methods, graphics, grDevices, parallel, quantreg,
cluster, moments, data.table, BiocParallel,
SingleCellExperiment, SummarizedExperiment, S4Vectors, ggplot2,
forcats
AnnotationDbi, BiocGenerics, Biostrings (>= 2.47.6),
GenomicAlignments (>= 1.15.7), GenomicFeatures (>= 1.31.5),
GenomeInfoDb, RUnit, S4Vectors (>= 0.17.28), grDevices,
graphics, igraph, parallel, rtracklayer (>= 1.39.7), stats
beanplot, glmnet, graphics, grDevices, grid, gridBase,
gridExtra, LiblineaR, matrixStats, methods, ParamHelpers, pROC,
PRROC, RColorBrewer, stats, utils
grDevices, graphics, stats, methods, Biobase, gdsfmt,
GenomicRanges, IRanges, S4Vectors, GWASExactHW, logistf,
Matrix, dplyr, tidyr
nnlasso, nnls, parallel, data.table, Biostrings,
GenomicRanges, IRanges, BSgenome,
BSgenome.Hsapiens.1000genomes.hs37d5, GenomeInfoDb, ggplot2,
gridExtra
networkD3, httr, igraph, utils, stats, TCGAbiolinks, miRNAtap,
miRNAtap.db, AnnotationDbi, org.Hs.eg.db, ggplot2, gridExtra,
gplots, grDevices, lattice, latticeExtra, visNetwork, gdata
methods, utils, graphics, igraph, BiocGenerics, S4Vectors (>=
0.17.5), IRanges (>= 2.3.21), GenomeInfoDb, GenomicRanges (>=
1.23.21), GenomicFeatures, Rsamtools, GenomicAlignments, graph,
Rgraphviz
utils, stats, tools, Matrix, BiocGenerics (>= 0.15.3),
S4Vectors (>= 0.17.25), IRanges (>= 2.13.16), GenomeInfoDb (>=
1.13.1)
shiny (>= 0.14.1), downloader (>= 0.4), grid, DT, plotly,
readr, maftools, stringr (>= 1.1.0), SummarizedExperiment,
ggrepel, data.table, minfi, caret,
IlluminaHumanMethylation450kanno.ilmn12.hg19,
IlluminaHumanMethylation450kmanifest,
IlluminaHumanMethylation27kmanifest,
IlluminaHumanMethylation27kanno.ilmn12.hg19,
IlluminaHumanMethylationEPICanno.ilm10b2.hg19,
IlluminaHumanMethylationEPICmanifest, shinyFiles (>= 0.6.2),
ggplot2 (>= 2.1.0), pathview, ELMER (>= 2.0.0),
clusterProfiler, parallel, TCGAbiolinks (>= 2.5.5), shinyjs (>=
0.7), colourpicker, shinyBS (>= 0.61)
BiocGenerics, GenomeInfoDb, GenomicRanges, GenomicDataCommons,
IRanges, methods, MultiAssayExperiment, rvest, S4Vectors,
stats, stringr, SummarizedExperiment, utils, xml2
GenomicRanges, IRanges, biomaRt, GenomicFeatures, grDevices,
stats, utils, R.utils
methods, GenomicRanges, IRanges, S4Vectors, GSEABase, shiny,
miniUI, data.table, dplyr, magrittr, AnnotationDbi, Rsamtools,
GenomeInfoDb, GenomicFiles, AnnotationFilter, GenomicFeatures,
Gviz, utils, stats, Biobase
stringr, R.utils, WriteXLS, stats, data.table, doParallel,
foreach, GenomicRanges, IRanges, VariantAnnotation
origami (>= 1.0.0), tmle, calibrate, methods, graphics, stats,
utils, SummarizedExperiment
AnnotationDbi, AnnotationHub, dplyr, GenomicFeatures,
GenomicRanges, GenomeInfoDb (>= 1.10.3), ggplot2, IRanges,
methods, readr, regioneR, reshape2, rtracklayer, S4Vectors (>=
0.17.5), stats, utils
dplyr, ggplot2, ggsci, superheat, doFuture, future, stats,
methods, limma, BiocParallel, SummarizedExperiment, tmle
grDevices, stats, scales, Hmisc, RColorBrewer, dichromat,
BiocGenerics, S4Vectors (>= 0.9.25), IRanges (>= 1.99.28),
GenomeInfoDb (>= 1.5.14), GenomicRanges (>= 1.23.21),
SummarizedExperiment, Biostrings (>= 2.33.11), Rsamtools (>=
1.17.28), GenomicAlignments (>= 1.1.16), GenomicFeatures (>=
1.21.19), AnnotationDbi, VariantAnnotation (>= 1.11.4),
ensembldb (>= 1.99.13), AnnotationFilter (>= 0.99.8), rlang
IRanges (>= 2.11.16), GenomeInfoDb, scales, stats, graphics,
Biobase, locfit, gtools, data.table, S4Vectors, R.utils (>=
2.0.0), DelayedMatrixStats (>= 1.1.12), permute, limma,
DelayedArray (>= 0.5.34), HDF5Array
stats, S4Vectors, BiocGenerics, utils, methods, Matrix,
SummarizedExperiment, SingleCellExperiment, Rtsne, graphics,
grDevices, gtools, RColorBrewer, ape
methods, grid, Rsamtools, GenomeInfoDb, GenomicAlignments,
RColorBrewer, graphics, AnnotationDbi, RCircos, org.Hs.eg.db,
org.Mm.eg.db, rmarkdown, graph, Rgraphviz, DT, plyr, dplyr,
BiocStyle, ArgumentCheck
methods, NMF, RColorBrewer, ape (>= 5.0), phylobase, cluster,
stats, limma, dendextend, howmany, locfdr, matrixStats,
graphics, parallel, RSpectra, kernlab, stringr, S4Vectors,
grDevices, Rcpp, HDF5Array (>= 1.7.10), DelayedArray (>=
0.5.31)
data.table, grDevices, clue, cluster, gplots, IRanges,
GenomicRanges, S4Vectors, Rcpp, TSP, GenomicFiles, gtools,
rtracklayer, BiocParallel, DNAcopy, colorspace, reshape2,
ggplot2, methods, exomeCopy, GenomicAlignments, diagram
Rsamtools, edgeR, limma, GenomicFeatures, AnnotationDbi,
methods, S4Vectors, IRanges, GenomeInfoDb, Rhtslib, stats, Rcpp
shiny, jsonlite, shinyjs, shinydashboard, shinyBS, pathview,
gplots, DT, ggplot2, RColorBrewer, annotate, AnnotationDbi,
DESeq2, DOSE, igraph, grDevices, graphics, stats, utils,
GenomicRanges, IRanges, S4Vectors, SummarizedExperiment,
stringi, reshape2, baySeq, d3heatmap, org.Hs.eg.db,
org.Mm.eg.db, limma, edgeR, clusterProfiler, V8, methods, sva,
RCurl, googleAuthR, enrichplot, colourpicker, plotly,
heatmaply, Harman
derfinder (>= 1.1.0), GenomeInfoDb (>= 1.3.3),
GenomicFeatures, GenomicRanges (>= 1.17.40), ggbio (>=
1.13.13), ggplot2, graphics, grDevices, IRanges (>= 1.99.28),
limma, methods, plyr, RColorBrewer, RefManageR, reshape2,
S4Vectors (>= 0.9.38), scales, utils
BiocGenerics (>= 0.25.1), AnnotationDbi (>= 1.27.9),
BiocParallel, bumphunter (>= 1.9.2), derfinderHelper (>=
1.1.0), GenomeInfoDb (>= 1.3.3), GenomicAlignments,
GenomicFeatures, GenomicFiles, GenomicRanges (>= 1.17.40),
Hmisc, IRanges (>= 2.3.23), methods, qvalue (>= 1.99.0),
Rsamtools (>= 1.25.0), rtracklayer, S4Vectors (>= 0.9.38)
methods, graphics, grDevices, utils, stats, Matrix, Rcpp (>=
0.10.3), RcppEigen, Biobase, BiocGenerics,
SummarizedExperiment, ggplot2, ggthemes, VIM, proxy, igraph,
smoother, scales, scatterplot3d
GenomicRanges, nlme, ggplot2, S4Vectors, RColorBrewer,
bumphunter, DelayedMatrixStats (>= 1.1.12), matrixStats,
BiocParallel, outliers, methods, locfit, IRanges, grDevices,
graphics, stats, utils, annotatr, AnnotationHub, rtracklayer,
GenomeInfoDb, splines
Biobase (>= 2.39.1), BiocGenerics (>= 0.25.1), BiocParallel
(>= 1.13.1), biomaRt (>= 2.35.8), Biostrings (>= 2.47.6), DESeq
(>= 1.31.0), edgeR (>= 3.21.6), GenomeInfoDb (>= 1.15.2),
genomeIntervals (>= 1.35.1), GenomicAlignments (>= 1.15.6),
GenomicRanges (>= 1.31.8), SummarizedExperiment (>= 1.9.9),
graphics, IRanges (>= 2.13.13), LSD (>= 3.0), locfit, methods,
parallel, Rsamtools (>= 1.31.2), S4Vectors (>= 0.17.25),
ShortRead (>= 1.37.1), utils
AnnotationDbi, cowplot, DOSE (>= 3.5.1), ggplot2, ggraph,
ggridges, GOSemSim, graphics, grDevices, grid, igraph, methods,
reshape2, UpSetR, utils
methods, RSQLite (>= 1.1), DBI, Biobase, GenomeInfoDb,
AnnotationDbi (>= 1.31.19), rtracklayer, S4Vectors, Rsamtools,
IRanges (>= 2.13.24), ProtGenerics, Biostrings (>= 2.47.9),
curl
rtracklayer (>= 1.38.1), S4Vectors, BiocGenerics,
GenomicRanges, SummarizedExperiment, ggplot2, GenomeInfoDb,
Biobase, shiny, BiocParallel, IRanges, AnnotationDbi
Rcpp (>= 0.12.11), methods, knitr, Rbowtie2, rtracklayer,
ggplot2, Biostrings, ChIPseeker, clusterProfiler, igraph,
rJava, DiagrammeR, magrittr, digest, BSgenome, AnnotationDbi,
GenomicFeatures, R.utils, GenomeInfoDb, BiocGenerics,
S4Vectors, IRanges, rmarkdown, tools, VennDiagram, grid,
JASPAR2016, TFBSTools, grDevices, graphics, stats, utils,
parallel, corrplot, BiocInstaller, motifmatchr
flowCore, graphics, car, sp, rgeos, gplots, RFOC,
flowWorkspace (>= 3.20.5), methods, stats, grDevices
Biobase, BiocGenerics, graph, graphics, grDevices, lattice,
methods, stats, stats4, utils, RBGL, XML, tools, gridExtra,
Rgraphviz, data.table, dplyr, latticeExtra, Rcpp, RColorBrewer,
stringr, scales, flowViz, matrixStats
igraph, snow, ape, grDevices, graphics, stats, utils
repo (>= 2.1.1), foreach, stats, utils, GSEABase, methods,
Biobase, XML
grid, grDevices, graphics, stats, utils, gridExtra, scales,
reshape2, gtable, Hmisc, biovizBase (>= 1.28.2), Biobase,
S4Vectors (>= 0.13.13), IRanges (>= 2.11.16), GenomeInfoDb (>=
1.1.3), GenomicRanges (>= 1.29.14), SummarizedExperiment,
Biostrings, Rsamtools (>= 1.17.28), GenomicAlignments (>=
1.1.16), BSgenome, VariantAnnotation (>= 1.11.4), rtracklayer
(>= 1.25.16), GenomicFeatures (>= 1.29.11), OrganismDbi,
GGally, ensembldb (>= 1.99.13), AnnotationDbi,
AnnotationFilter, rlang
ape, dplyr, ggplot2 (>= 2.2.1.9000), grDevices, grid,
magrittr, methods, purrr, rlang, rvcheck (>= 0.1.0), scales,
tibble, tidyr, tidytree (>= 0.1.5), treeio (>= 1.3.14), utils
AnnotationDbi, assertive.sets, BiocGenerics (>= 0.7.5),
Biobase, DESeq2, IRanges, dplyr, GenomicRanges, gplots,
ggplot2, gtools, gridExtra, grid, grDevices, graphics, GGally,
limma, methods, RColorBrewer, readr, reshape, rlang, stats,
tidyr, S4Vectors, tidyr, tibble, targetscan.Hs.eg.db
regioneR, GenomicRanges, IRanges, Rsamtools, stats, graphics,
memoise, rtracklayer, GenomeInfoDb, S4Vectors, biovizBase,
digest, bezier, GenomicFeatures
aod, Biobase, DESeq2, DSS, ggplot2, glmnet, gplots, graphics,
grDevices, matrixStats, R.utils, stats, utils
Matrix, snpStats, erma, VariantAnnotation, GenomeInfoDb,
Rsamtools, GO.db, GenomicFiles (>= 1.13.6), BiocGenerics (>=
0.25.1)
fgsea, GenomicFeatures, GenomicRanges, ggplot2, graphics,
grDevices, Gviz, IRanges, limma, parallel, S4Vectors, stats,
SummarizedExperiment, utils
AnnotationDbi, DOSE (>= 3.5.1), enrichplot, GOSemSim (>=
1.99.3), MeSH.db, methods, rvcheck
stats, cluster, methods, ggplot2, ggsci, gridExtra, superheat,
dplyr, gtools, tmle, future, doFuture, BiocGenerics,
BiocParallel, SummarizedExperiment, GenomeInfoDb, bumphunter,
IRanges, limma, minfi
corpcor, parallel, igraph, MCL, clusterProfiler, ReactomePA,
DOSE, survival, grDevices, graphics, stats, varhandle,
linkcomm, utils, Rcpp
S4Vectors, GenomeInfoDb, Biobase (>= 2.33.2), IRanges,
beanplot, RColorBrewer, lattice, nor1mix, siggenes, limma,
preprocessCore, illuminaio, DelayedMatrixStats, mclust,
genefilter, nlme, reshape, MASS, quadprog, data.table,
GEOquery, stats, grDevices, graphics, utils, DelayedArray (>=
0.5.23), HDF5Array, BiocParallel
XML, scales, htmlwidgets,grDevices, stats, stats4, graphics,
utils
entropy, SummarizedExperiment, SingleCellExperiment, Matrix,
cluster, data.table, stats, methods
ALDEx2 (>= 1.8.0), compositions, grDevices, knitr,
matrixStats, rmarkdown, shiny, stats, vegan, zCompositions
ggplot2, protolite, Biobase, GEOquery, Rook, htmltools,
httpuv, jsonlite, limma, opencpu, assertthat, methods, httr,
rhdf5, utils, parallel, stringr, fgsea, svglite
dplyr, rlang (>= 0.2.0), magrittr, tidyr, tidyselect,
rtracklayer, GenomicAlignments, GenomeInfoDb, Rsamtools,
S4Vectors (>= 0.17.41), utils
cubature, evmix, magrittr, methods, purrr, stats, tcR,
truncdist, VGAM
AnnotationHub, cluster, colourpicker, data.table, digest,
dplyr, DT (>= 0.2), edgeR, fastICA, fastmatch, ggplot2,
ggrepel, grDevices, highcharter (>= 0.5.0), htmltools, httr,
jsonlite, limma, miscTools, pairsD3, plyr, Rcpp (>= 0.12.14),
recount, R.utils, shinyjs, stringr, stats,
SummarizedExperiment, survival, tools, utils, XML, xtable,
methods
Rhtslib, biomaRt, GGally, MASS, mclust, Rcpp (>= 0.11.3),
reshape, BiocGenerics, robustbase, scales, utils, stats,
S4Vectors, SummarizedExperiment, AnnotationDbi, org.Hs.eg.db,
org.Mm.eg.db
BiocGenerics, data.table, dplyr, edgeR, ggbeeswarm, grid,
limma, Matrix, DelayedMatrixStats, methods, parallel, plyr,
reshape2, rhdf5, rjson, S4Vectors, shiny, shinydashboard,
stats, tximport, utils, viridis, Rcpp (>= 0.12.14),
DelayedArray
ggplot2, knitr, rmarkdown, bsseq, AnnotationHub,
GenomicRanges, reshape2, stats, utils, BSgenome, DelayedArray
(>= 0.5.15), annotatr, SummarizedExperiment (>= 1.5.6),
GenomeInfoDb, Biostrings, DT, ggthemes, scales, viridis,
HDF5Array (>= 1.7.5)
SummarizedExperiment, S4Vectors, BiocGenerics, Rcpp (>=
0.12.14), stats, methods, utils, graphics, grDevices, Matrix,
scater, edgeR, limma, dynamicTreeCut, FNN, igraph, shiny,
statmod, ggplot2, DT, viridis, DelayedArray, DelayedMatrixStats
data.table, eulerr, GenomicRanges, grDevices, grid, IRanges,
limma, methods, png, RColorBrewer, Rsamtools, rtracklayer,
S4Vectors, stats
httr, jsonlite, yaml, objectProperties, stringr, S4Vectors,
docopt, curl, uuid, dplyr, shiny (>= 0.13), miniUI (>= 0.1.1),
rstudioapi (>= 0.5)
BiocGenerics, Biostrings, class, graphics, grDevices,
GenomicRanges, nloptr, methods, stats, utils, PMCMR
ape, colourpicker, cluster, ComplexHeatmap, data.table,
DESeq2, DT, ggplot2, ggtree, gridExtra, GSVA (>= 1.26.0),
GSVAdata, limma, MAST, matrixStats, methods, multtest, plotly,
RColorBrewer, Rtsne, S4Vectors, shiny, shinyjs, sva, reshape2,
AnnotationDbi, shinyalert, circlize
methods, stats, graphics, ggplot2, ggsci, grDevices, ggrepel,
plotly, tidyr, plyr, magrittr, reshape, edgeR, RColorBrewer,
Biobase, BiocParallel, SummarizedExperiment, matrixStats
minfi, S4Vectors (>= 0.18.1), RColorBrewer
akima, BiocGenerics, BiocParallel, checkmate, edgeR,
fitdistrplus, ggplot2, locfit, matrixStats, methods, scales,
scater (>= 1.7.4), stats, SummarizedExperiment, utils, crayon
Rcpp (>= 0.12.8), methods, utils, devtools, BiocStyle,
S4Vectors, GenomeInfoDb, rtracklayer, SummarizedExperiment,
IRanges, GenomicRanges, DESeq2, Rsamtools, GenomicFeatures,
GenomicAlignments, ggplot2, BiocParallel
BiocGenerics, GenomicRanges, GenomicFeatures (>= 1.31.3),
SummarizedExperiment, VariantAnnotation (>= 1.25.11), rjson,
ggplot2, grid, limma, edgeR, DESeq2, GOstats, GO.db, annotate,
pheatmap, BatchJobs
methods, assertive, stringr, reshape2, BiocGenerics,
Biostrings, S4Vectors, GenomicRanges, GenomeInfoDb, rtracklayer
GenomeInfoDb, GenomicAlignments, GenomicFeatures, Gviz,
Rsamtools, S4Vectors, rtracklayer, BiocGenerics, scales, tools,
IRanges, AnnotationDbi, grImport, htmlwidgets, plotrix,
Rgraphviz, InteractionSet, graph
biomaRt, data.table, doSNOW, foreach, ggplot2, graphics,
grDevices, igraph, limma, parallel, progress, RedeR, snow,
stats, topGO
ape, dplyr, jsonlite, magrittr, methods, rlang, rvcheck,
tibble, tidytree (>= 0.1.7)
RSQLite, lassopv, randomForest, flare, vbsr, BiocParallel,
RPostgreSQL, methods, DBI, BSgenome,
BSgenome.Hsapiens.UCSC.hg38, BSgenome.Hsapiens.UCSC.hg19,
BSgenome.Mmusculus.UCSC.mm10, SNPlocs.Hsapiens.dbSNP150.GRCh38,
org.Hs.eg.db, Biostrings, GenomicRanges, biomaRt, AnnotationDbi
MASS, pbkrtest (>= 0.4-4), lmerTest, iterators, splines,
colorRamps, gplots, reshape2, lme4 (>= 1.1-10), doParallel,
grDevices, graphics, utils, stats
Biobase, DESeq2, edgeR, knitr, rmarkdown, GGally, ggplot2,
scales, stats, SummarizedExperiment, tidyr, utils
mzR (>= 2.13.1), BiocGenerics, ProtGenerics, lattice,
RColorBrewer, plyr, RANN, multtest, MassSpecWavelet (>= 1.5.2),
S4Vectors
Biobase, QDNAseq, ggplot2, grid, stats, utils, methods,
grDevices
utils, methods, grDevices, RSQLite, BiocManager, curl,
AnnotationDbi (>= 1.31.19), S4Vectors, interactiveDisplayBase,
httr, yaml
BiocGenerics, methods, coda, data.table, graphics, grDevices,
MASS, matrixStats, Rcpp (>= 0.11.3), S4Vectors, scran, stats,
SummarizedExperiment, testthat, utils
futile.logger, stats, Rdpack, graphics, Matrix, utils,
methods, data.table (>= 1.11.8)
ComplexHeatmap, S4Vectors, bigrquery, shiny, stats, httr,
rjson, dplyr, magrittr, grid, utils, DT, GenomicRanges,
IRanges, ggplot2, SummarizedExperiment, DBI, GenomicFeatures
BiocManager, tibble, stringr, rvest, rex, dplyr, xml2, readr,
httr, htmltools, DT, tools, utils, igraph, tidyr, jsonlite, gh
beanplot, BiocGenerics, BiocParallel, BSgenome, data.table,
DelayedArray, formula.tools, GenomeInfoDb, GenomicAlignments,
GenomicRanges (>= 1.23.16), ggplot2 (>= 2.2.0), gtools, IRanges
(>= 2.5.27), KernSmooth, memoise, MultiAssayExperiment, plyr,
Rsamtools, reshape, rtracklayer, S4Vectors, som, stringdist,
stringi, SummarizedExperiment, utils, vegan, VGAM
methods, rJava, BiocParallel, stats, Biobase,
SummarizedExperiment, corpcor, geometry, NMF, DMwR, pcaPP,
apcluster, graphics
Biobase, circlize, ComplexHeatmap, ConsensusClusterPlus,
data.table, dplyr, drc, DT, flowCore, FlowSOM, ggplot2,
ggrepel, ggridges, graphics, grDevices, grid, gridExtra,
htmltools, limma, magrittr, matrixStats, methods, nnls, plotly,
purrr, RColorBrewer, reshape2, Rtsne, S4Vectors, scales,
scater, shiny, shinydashboard, shinyBS, shinyjs,
SingleCellExperiment, stats, SummarizedExperiment, utils
methods, scales, gRbase, dplyr, data.table (>= 1.9.4), WGCNA,
grid, ggplot2, ggpmisc, ggthemes, ggrepel, sna,
clusterProfiler, fgsea, stringr, knitr, rmarkdown, igraph, DT,
htmltools, pracma, intergraph, grDevices, utils, network,
matrixStats, ggdendro, gridExtra, gtable, GeneOverlap, limma,
tidyr, plyr, ff, ffbase, RColorBrewer
BiocGenerics, S4Vectors, IRanges, data.table, ggplot2,
Biobase, stats, methods, ComplexHeatmap, MIRA, tidyr, grid,
grDevices
shiny, ConsensusClusterPlus, RColorBrewer, gplots, jsonlite,
ape, WGCNA
Biobase, dplyr, grid, irlba, lattice, magrittr, matter,
signal, sp, stats4, utils
prettydoc,Hmisc,globaltest,sva,illuminaio,rmarkdown,IlluminaHumanMethylation450kmanifest,IlluminaHumanMethylationEPICanno.ilm10b2.hg19,
limma,RPMM, DNAcopy, preprocessCore,impute, marray, wateRmelon,
plyr,goseq,missMethyl,kpmt,
GenomicRanges,qvalue,isva,doParallel,bumphunter,quadprog,shiny,shinythemes,plotly
(>= 4.5.6),RColorBrewer,dendextend, matrixStats,combinat
ChIC.data (>= 1.1.4), caTools, methods,GenomicRanges, IRanges,
parallel, progress, caret, grDevices, stats, utils, graphics,
S4Vectors, BiocGenerics
BiocGenerics (>= 0.1.0), GO.db, biomaRt, BSgenome,
GenomicFeatures, GenomeInfoDb, matrixStats, AnnotationDbi,
limma, multtest, RBGL, graph, BiocManager, stats, regioneR,
DBI, ensembldb, Biobase, seqinr, idr, GenomicAlignments,
DelayedArray, SummarizedExperiment, Rsamtools
BiocParallel, cluster, data.table, methods, gplots, graphics,
grDevices, RColorBrewer, Rcpp, S4Vectors, SingleCellExperiment,
stats, SummarizedExperiment, tools, utils, rhdf5
circlize (>= 0.4.1), GetoptLong, colorspace, RColorBrewer,
GlobalOptions (>= 0.1.0)
flowCore (>= 1.43.10), flowWorkspace (>= 3.29.10), openCyto
(>= 1.11.3), XML, data.table, flowUtils (>= 1.35.7), jsonlite,
RBGL, ncdfFlow, Rgraphviz, Biobase, methods, graph, graphics,
utils, base64enc, plyr, grDevices, ggcyto (>= 1.9.3)
MSnbase, RColorBrewer,stats,preprocessCore,Cairo,png,
lattice,reshape2,gplots,pcaMethods,ggplot2,
limma,knitr,tmvtnorm,norm,impute, stringr, grDevices, graphics,
openxlsx, utils, cp4p (>= 0.3.5), scales, Matrix, vioplot,
imp4p (>= 0.7), highcharter (>= 0.5.0), DAPARdata (>= 1.11.2),
siggenes, graph, lme4, readxl, clusterProfiler, dplyr,
tidyr,AnnotationDbi, tidyverse, vsn, FactoMineR, factoextra
BiocParallel, BiocGenerics, ChIPpeakAnno, data.table,
DelayedArray, GenomeInfoDb, GenomicAlignments, glue, IRanges,
plyr, Rcpp (>= 0.12.13), rtracklayer, S4Vectors,
SummarizedExperiment, tools, utils
methods, matrixStats (>= 0.53.1), Matrix, S4Vectors (>=
0.17.5), IRanges, HDF5Array (>= 1.7.10), BiocParallel
S4Vectors, Matrix, methods, utils, stats, edgeR, Rcpp, rhdf5,
HDF5Array
GenomicRanges, ggplot2, reshape, grid, grDevices, graphics,
methods, parallel, stats, utils, IRanges, GenomeInfoDb,
S4Vectors, GenomicFeatures, TCGAbiolinks (>= 2.9.2), plyr,
Matrix, dplyr, Gviz, ComplexHeatmap, circlize,
MultiAssayExperiment, SummarizedExperiment, biomaRt,
doParallel, downloader, ggrepel, lattice, magrittr, readr,
rvest, xml2, plotly, gridExtra, rmarkdown, stringr, tibble,
tidyr, progress, purrr, rtracklayer, DelayedArray
AnnotationDbi, BiocFileCache, BiocManager, ComplexHeatmap,
DESeq2, EDASeq, GSEABase, GO.db, KEGGREST, KEGGgraph, MASS,
ReportingTools, Rgraphviz, S4Vectors, SPIA, biocGraph, edgeR,
geneplotter, graphite, hwriter, limma, methods, pathview,
rappdirs, safe, topGO
GenomicFeatures, stringr, GenomeInfoDb, igraph, MASS, nnls,
limma, matrixStats, RBGL, prodlim, graph, methods, utils,
stats, doParallel, foreach, affxparser, GenomicRanges,
S4Vectors, IRanges, qvalue, cobs, rhdf5
dplyr, XLConnect, ggplot2, readr, tibble, xml2, reshape2,
tidyr, magrittr, stats, utils, hpar, cowplot
ggplot2, viridis, RColorBrewer, scales, reshape2, stringr,
data.table, GenomeInfoDb, GenomicRanges, stats, IRanges,
grDevices, S4Vectors, digest, BiocFileCache, rappdirs
methods, utils, HilbertVis, png, grDevices, circlize (>=
0.3.3), IRanges, GenomicRanges
pROC, deSolve, rootSolve, compiler, preprocessCore,
GenomicFeatures, GenomicRanges, IRanges, BiocGenerics,
GenomicAlignments, Rsamtools, S4Vectors, DESeq2, plgem,
SummarizedExperiment, TxDb.Mmusculus.UCSC.mm9.knownGene, shiny
utils, R6, data.table, curl, httr, Rlabkey (>= 2.1.136),
Biobase, pheatmap, ggplot2, scales, stats, gtools, gplots,
reshape2, plotly, heatmaply (>= 0.7.0), rjson, rmarkdown,
preprocessCore, parallel, flowCore, flowWorkspace, digest
IRanges, S4Vectors (>= 0.19.4), GenomeInfoDb, BiocGenerics,
methods, Matrix, Rcpp
methods, BSgenome, plyr, reshape2, gridExtra, Biostrings,
IRanges, GenomicRanges, DRIMSeq, RColorBrewer, rtracklayer,
VennDiagram, DBI, grDevices, graphics, stats, utils,
GenomeInfoDb, grid, tximport (>= 1.7.1), edgeR, futile.logger,
limma, stringr, dplyr, magrittr, readr
data.table, BiocParallel, sqldf, stats, grid
DelayedArray, GenomicRanges, HDF5Array, stats, utils
ggplot2, Matrix, doSNOW, NMF, RColorBrewer, cluster, parallel,
foreach, doParallel, matrixcalc, dendextend, sigclust, Rtsne,
survival
ggExtra, ggsci, ggrepel, clusterProfiler, png, data.table,
pheatmap, sva, DOSE, biomaRt, grid, bladderbatch
limma, lme4, dplyr, tidyr, nlme, reshape2, data.table,
matrixStats, stats, utils, ggplot2, grDevices, graphics,
MSstats
methods, GenomicRanges (>= 1.25.93), BiocGenerics, S4Vectors
(>= 0.17.5), IRanges, Biobase, stats, tidyr, utils
vsn, preprocessCore, limma, MASS, ape, car, ggplot2, methods,
Biobase, RcmdrMisc, raster, utils, stats, SummarizedExperiment,
matrixStats
BBmisc, Biobase, BiocGenerics, compiler, DESeq2 (>= 1.16.1),
GenomicRanges, ggplot2, ggpubr, gplots, graphics, IRanges,
matrixStats, plotly, plyr, pcaMethods, PRROC, RColorBrewer,
Rcpp, reticulate, S4Vectors, scales, splines, stats, utils
GEOmetadb, RSQLite, data.table, methods, tools, utils,
AnnotationDbi, RCurl, stats, DT, knitr
S4Vectors (>= 0.9.25), Rsamtools (>= 1.10.2), GenomicFeatures
(>= 1.19.8), biomaRt (>= 2.17.1), stringr, RCurl, Nozzle.R1,
VariantAnnotation (>= 1.7.28), rtracklayer, RSQLite, ggplot2,
AnnotationDbi, customProDB (>= 1.21.5), pheatmap
bnlearn, C50 (>= 0.1.2), MASS, matrixStats, partykit,
Rgraphviz, WGCNA, GO.db, impute, preprocessCore, grDevices,
graphics, stats, utils, parallel, pheatmap (>= 1.0.8)
DAPAR (>= 1.13.15), DAPARdata (>= 1.11.2), rhandsontable,
data.table, shinyjs, DT, shiny, shinyBS, shinyAce, highcharter,
htmlwidgets, webshot, R.utils, shinythemes, XML,later,
rclipboard, shinycssloaders, future, promises, colourpicker,
BiocManager, shinyjqui,shinyTree, shinyWidgets
methods, grDevices, graphics, utils, zlibbioc, BiocGenerics,
S4Vectors (>= 0.9.25), IRanges, BiocManager, Biobase,
Biostrings, BSgenome, Rsamtools (>= 1.19.38), GenomicFeatures
(>= 1.17.13), ShortRead (>= 1.19.1), GenomicAlignments,
BiocParallel, GenomeInfoDb, rtracklayer, GenomicFiles
BiocGenerics, data.table, DelayedArray, GenomicRanges,
GenomeInfoDb, IRanges, limma, methods, RaggedExperiment,
RCircos, RCurl, RJSONIO, S4Vectors, stringr,
SummarizedExperiment, survival, TCGAutils, XML
survival, RColorBrewer, grDevices, graphics, stats, utils,
viper, scales
beanplot, glmnet, graphics, grDevices, grid, gridBase,
gridExtra, LiblineaR, matrixStats, methods, ParamHelpers, pROC,
PRROC, RColorBrewer, scales, stats, stringr, utils, infotheo,
corrplot
S4Vectors, methods, BiocGenerics, utils, stats
methods, utils, graphics, igraph, BiocGenerics, S4Vectors (>=
0.17.5), BiocParallel, IRanges (>= 2.3.21), GenomeInfoDb,
GenomicRanges (>= 1.23.21), GenomicFeatures, Rsamtools,
GenomicAlignments, graph, Rgraphviz
shiny (>= 0.14.1), downloader (>= 0.4), grid, DT, plotly,
readr, maftools, stringr (>= 1.1.0), SummarizedExperiment,
ggrepel, data.table, caret, shinyFiles (>= 0.6.2), ggplot2 (>=
2.1.0), pathview, ELMER (>= 2.0.0), clusterProfiler, parallel,
TCGAbiolinks (>= 2.5.5), shinyjs (>= 0.7), colourpicker,
sesame, sesameData, shinyBS (>= 0.61)
downloader (>= 0.4), survminer, grDevices, dplyr, gridExtra,
graphics, tibble, grid, GenomicRanges, XML (>= 3.98.0),
data.table, EDASeq (>= 2.0.0), edgeR (>= 3.0.0), jsonlite (>=
1.0.0), plyr, knitr, methods, biomaRt, ggplot2, ggthemes,
survival, stringr (>= 1.0.0), IRanges, scales, rvest (>=
0.3.0), stats, utils, selectr, S4Vectors, ComplexHeatmap (>=
1.10.2), R.utils, SummarizedExperiment (>= 1.4.0), genefilter,
ConsensusClusterPlus, readr, RColorBrewer, doParallel,
GenomeInfoDb, GenomicFeatures, parallel, tools, sesame, tidyr,
sva, limma, xml2, httr (>= 1.2.1), matlab, circlize, ggrepel
(>= 0.6.3)
data.table (>= 1.9.4), shiny, shinyFiles, gsubfn, Biostrings,
GenomicFeatures, GenomeInfoDb, GenomeInfoDbData, Sushi,
moments, DT, yaml, AnnotationHub, BSgenome, httpuv, mirbase.db
shiny, shinyjs, DT, VariantAnnotation, BSgenome,
BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene,
Homo.sapiens, SNPlocs.Hsapiens.dbSNP144.GRCh37,
XtraSNPlocs.Hsapiens.dbSNP144.GRCh37, rsnps, Biostrings,
MafDb.1Kgenomes.phase3.hs37d5, MafDb.ExAC.r1.0.hs37d5,
MafDb.ESP6500SI.V2.SSA137.hs37d5, MafDb.gnomADex.r2.0.1.hs37d5,
COSMIC.67, rentrez, PolyPhen.Hsapiens.dbSNP131,
SIFT.Hsapiens.dbSNP137, seqinr, openxlsx, Rsamtools, stringr,
utils, stats, GenomicRanges, S4Vectors, GenomicFeatures,
IRanges, GenomicScores, SummarizedExperiment
AnnotationDbi, biomaRt, bit64, circlize, cluster,
ComplexHeatmap, corrplot, data.table, dplyr, factoextra,
FactoMineR, getopt, ggdendro, ggplot2, gplots, ggrepel,
gProfileR, graphics, grDevices, grid, limma, MSstats, openxlsx,
org.Hs.eg.db, org.Mm.eg.db, PerformanceAnalytics, pheatmap,
plotly, plyr, RColorBrewer, reshape2, seqinr, stats, stringr,
tidyr, UpSetR, utils, VennDiagram, yaml
Rcpp (>= 0.12.12), BB, foreach, iterators, doSNOW, parallel,
MASS, locfit, fitdistrplus, stats, methods, graphics,
grDevices, SingleCellExperiment, SummarizedExperiment,
BiocParallel, utils
utils, methods, Rhdf5lib (>= 1.1.4), rhdf5, HDF5Array (>=
1.9.5), DelayedArray (>= 0.7.38), Rcpp (>= 0.12.14),
BiocGenerics
DT (>= 0.3), dplyr (>= 0.7.2), shiny (>= 1.0.5), AlgDesign (>=
1.1.7.3), import (>= 1.1.0), methods, shinythemes, Biobase,
geNetClassifier, AnnotationFuncs, org.Hs.eg.db, DOSE,
clusterProfiler, reactome.db, ReactomePA, DiagrammeR(>= 0.7),
visNetwork, htmlwidgets, plyr, tibble
dplyr, ggplot2, ggsci, superheat, doFuture, future, stats,
methods, limma, S4Vectors, BiocGenerics, BiocParallel,
SummarizedExperiment, tmle
BiocGenerics, ExperimentHub, ggplot2, grDevices, grid,
gridExtra, methods, randomForest, RColorBrewer, stats, testthat
IRanges (>= 2.11.16), GenomeInfoDb, scales, stats, graphics,
Biobase, locfit, gtools, data.table (>= 1.11.8), S4Vectors,
R.utils (>= 2.0.0), DelayedMatrixStats (>= 1.3.6), permute,
limma, DelayedArray (>= 0.7.15), Rcpp, BiocParallel, BSgenome,
Biostrings, utils, HDF5Array, rhdf5
data.table, limma, stats, fgsea, pbapply, plyr, cowplot,
ggplot2, rhdf5, R.utils, httr, methods, piano, readr, utils,
graphics
stats, S4Vectors, utils, methods, Matrix,
SummarizedExperiment, SingleCellExperiment, Rtsne, graphics,
grDevices, gtools, RColorBrewer, ape, Rmpi, irlba, Rcpp
MAST, ggplot2, Matrix, dplyr, magrittr, stats, utils, rlang,
BiocGenerics, S4Vectors, readr, tibble
methods, grid, Rsamtools, GenomeInfoDb, GenomicAlignments,
RColorBrewer, graphics, AnnotationDbi, RCircos, org.Hs.eg.db,
org.Mm.eg.db, rmarkdown, graph, Rgraphviz, DT, plyr, dplyr,
BiocStyle, ArgumentCheck, gtools
methods, NMF, RColorBrewer, ape (>= 5.0), phylobase, cluster,
stats, limma, dendextend, howmany, locfdr, matrixStats,
graphics, parallel, RSpectra, kernlab, stringr, S4Vectors,
grDevices, Rcpp, HDF5Array (>= 1.7.10), DelayedArray (>=
0.5.31), edgeR, scales, zinbwave
limma, AnnotationDbi, Biobase, edgeR, BiocParallel,
GenomicAlignments, EDASeq, RColorBrewer, GenomicFeatures,
SummarizedExperiment, DESeq2 (>= 1.20.0), pcaMethods,
dendextend, RUVSeq, Rsamtools, S4Vectors, stats,
TxDb.Dmelanogaster.UCSC.dm3.ensGene, airway, Biostrings
Rcpp, BiocGenerics, Rsamtools, edgeR, limma, GenomicFeatures,
AnnotationDbi, methods, S4Vectors, IRanges, GenomeInfoDb, stats
BiocGenerics (>= 0.25.1), AnnotationDbi (>= 1.27.9),
BiocParallel (>= 1.15.15), bumphunter (>= 1.9.2),
derfinderHelper (>= 1.1.0), GenomeInfoDb (>= 1.3.3),
GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges
(>= 1.17.40), Hmisc, IRanges (>= 2.3.23), methods, qvalue (>=
1.99.0), Rsamtools (>= 1.25.0), rtracklayer, S4Vectors (>=
0.9.38)
AnnotationDbi, cowplot, DOSE (>= 3.5.1), europepmc, ggplot2,
ggplotify, ggraph, ggridges, GOSemSim, graphics, grDevices,
grid, gridExtra, igraph, methods, purrr, RColorBrewer,
reshape2, stats, UpSetR, utils
BiocGenerics, methods, Biobase, graph, ellipse, flowViz,
flowCore, clue, corpcor, mnormt
Biobase, BiocGenerics (>= 0.1.14), graph, grDevices, graphics,
methods, rrcov, stats, utils, stats4, corpcor, Rcpp,
matrixStats, MASS
BiocGenerics, MASS, flowViz, fda (>= 2.2.6), Biobase, methods,
grDevices, graphics, stats, utils, KernSmooth, lattice,ks,
RColorBrewer
rstan (>= 2.17.3), rstantools (>= 1.5.0), ranger, parallel,
foreach, doParallel, e1071, Biostrings
ape, dplyr, ggplot2 (>= 3.0.0), grDevices, grid, magrittr,
methods, purrr, rlang, rvcheck (>= 0.1.0), scales, tibble,
tidyr, tidytree (>= 0.1.9), treeio (>= 1.3.14), utils
SummarizedExperiment, STRINGdb, biomaRt, futile.logger,
sparsebn, sparsebnUtils, forcats, dplyr, readr, ggplot2,
survminer, reshape2, stats, stringr, rlang, parallel, methods,
loose.rock
stats, utils, methods, graphics, grDevices, ggplot2,
GenomicFeatures, ShortRead, BiocParallel, Biostrings,
S4Vectors, Rsamtools, BiocGenerics, IRanges, GenomicAlignments,
GenomicRanges, rtracklayer, SummarizedExperiment,
VariantAnnotation, limma, edgeR, csaw,
TxDb.Dmelanogaster.UCSC.dm6.ensGene
DESeq2, SummarizedExperiment, GenomicRanges, IRanges,
S4Vectors, ggplot2 (>= 2.0.0), d3heatmap, pheatmap,
pcaExplorer, IHW, gplots, UpSetR, goseq, stringr, dplyr, limma,
GOstats, GO.db, AnnotationDbi, shiny (>= 0.12.0),
shinydashboard, shinyBS, DT, rentrez, rintrojs, knitr,
rmarkdown, shinyAce, BiocParallel, grDevices, methods
AnnotationDbi, assertive.sets, BiocGenerics, Biobase, cluster,
cowplot, DEGreport, DESeq2, IRanges, dplyr, GenomicRanges,
gplots, ggplot2, gtools, gridExtra, grid, grDevices, graphics,
GGally, limma, methods, RColorBrewer, readr, reshape, rlang,
stats, S4Vectors, tidyr, tibble
regioneR, GenomicRanges, IRanges, Rsamtools, stats, graphics,
memoise, rtracklayer, GenomeInfoDb, S4Vectors, biovizBase,
digest, bezier, GenomicFeatures, bamsignals
data.table, ggplot2(>= 2.0), cowplot, cometExactTest,
RColorBrewer, NMF, ggrepel, methods, ComplexHeatmap, mclust,
Biostrings, rjson, grid, wordcloud, grDevices, gridExtra,
survival, BSgenome
RobustRankAggreg, ggplot2, stringr, stats, clusterProfiler,
missMethyl, org.Hs.eg.db, reactome.db, GO.db, AnnotationDbi,
IlluminaHumanMethylation450kanno.ilmn12.hg19,
IlluminaHumanMethylationEPICanno.ilm10b2.hg19
stats, cluster, methods, ggplot2, ggsci, gridExtra, superheat,
dplyr, gtools, tmle, future, doFuture, S4Vectors, BiocGenerics,
BiocParallel, SummarizedExperiment, GenomeInfoDb, bumphunter,
IRanges, limma, minfi
WGCNA, flashClust, dynamicTreeCut, GFA, igraph, linkcomm, MCL,
NMF, biclust, runibic, iBBiG, fabia, BicARE, isa2, s4vd,
BiBitR, rqubic, Biobase, PMA, stats, miRsponge, Rcpp, utils,
SummarizedExperiment, GSEABase
corpcor, parallel, igraph, MCL, clusterProfiler, ReactomePA,
DOSE, survival, grDevices, graphics, stats, varhandle,
linkcomm, utils, org.Hs.eg.db, Rcpp
S4Vectors, GenomeInfoDb, Biobase (>= 2.33.2), IRanges,
beanplot, RColorBrewer, lattice, nor1mix, siggenes, limma,
preprocessCore, illuminaio (>= 0.23.2), DelayedMatrixStats (>=
1.3.4), mclust, genefilter, nlme, reshape, MASS, quadprog,
data.table, GEOquery, stats, grDevices, graphics, utils,
DelayedArray (>= 0.7.38), HDF5Array, BiocParallel
Biobase, BiocGenerics (>= 0.13.6), ProtGenerics (>= 1.9.1),
ncdf4
methods,Biobase,BiocGenerics,gtools,flowCore(>=
1.31.17),flowViz,ncdfFlow(>=
2.11.34),flowWorkspace,flowStats(>= 3.29.1),flowClust(>=
3.11.4),MASS,clue,plyr,RBGL,graph,data.table,ks,RColorBrewer,lattice,rrcov,R.utils
ggplot2, protolite, Biobase, GEOquery, Rook, htmltools,
httpuv, jsonlite, limma, opencpu, assertthat, methods, httr,
rhdf5, utils, parallel, stringr, fgsea, svglite, gtable, stats,
Matrix, Matrix.utils, pheatmap, scales, ccaPP, grid, grDevices
AnnotationDbi, AnnotationHub, cluster, colourpicker,
data.table, digest, dplyr, DT (>= 0.2), edgeR, fastICA,
fastmatch, ggplot2, ggrepel, graphics, grDevices, highcharter
(>= 0.5.0), htmltools, httr, jsonlite, limma, miscTools,
pairsD3, plyr, Rcpp (>= 0.12.14), recount, R.utils, reshape2,
shinyjs, stringr, stats, SummarizedExperiment, survival, tools,
utils, XML, xtable, methods, org.Hs.eg.db
memoise, GenomicRanges, IRanges, BSgenome, Biostrings,
rtracklayer, parallel, graphics, stats, utils, methods,
GenomeInfoDb, S4Vectors
BiocGenerics, SummarizedExperiment, Matrix, dplyr, ggbeeswarm,
grid, DelayedMatrixStats, methods, plyr, reshape2, S4Vectors,
stats, utils, viridis, Rcpp (>= 0.12.14), DelayedArray
SummarizedExperiment, S4Vectors, BiocGenerics, Rcpp (>=
0.12.14), stats, methods, utils, Matrix, scater, edgeR, limma,
dynamicTreeCut, BiocNeighbors, igraph, statmod, DelayedArray,
DelayedMatrixStats
data.table, eulerr, GenomeInfoDb, GenomicAlignments,
GenomicRanges, grDevices, grid, IRanges, limma, methods, png,
RColorBrewer, Rsamtools, rtracklayer, S4Vectors, stats
R6, grDevices, utils, illuminaio, MASS, GenomicRanges,
IRanges, grid, preprocessCore, stats, S4Vectors, randomForest,
wheatmap, ggplot2, parallel, DNAcopy
ape, colourpicker, cluster, ComplexHeatmap, data.table,
DESeq2, DT, ggplot2, ggtree, gridExtra, GSVA (>= 1.26.0),
GSVAdata, limma, MAST, matrixStats, methods, multtest, plotly,
RColorBrewer, Rtsne, S4Vectors, shiny, shinyjs, sva, reshape2,
AnnotationDbi, shinyalert, circlize, enrichR, shinycssloaders
ape, clusterExperiment, graphics, grDevices, igraph,
matrixStats, methods, rgl, SingleCellExperiment,
SummarizedExperiment
stringr, S4Vectors, methods, assertive, BiocGenerics, IRanges,
XVector, Biostrings, ggplot2, scales
Biostrings, stringr, xml2, S4Vectors, assertive, methods,
httr, IRanges, utils
methods, assertive, stringr, BiocGenerics, Biostrings,
S4Vectors, GenomeInfoDb, rtracklayer
ape, dplyr, jsonlite, magrittr, methods, rlang, rvcheck,
tibble, tidytree (>= 0.1.7), utils
RSQLite, lassopv, randomForest, flare, vbsr, BiocParallel,
RPostgreSQL, RMariaDB, methods, DBI, BSgenome,
BSgenome.Hsapiens.UCSC.hg38, BSgenome.Hsapiens.UCSC.hg19,
BSgenome.Mmusculus.UCSC.mm10, SNPlocs.Hsapiens.dbSNP150.GRCh38,
org.Hs.eg.db, Biostrings, GenomicRanges, biomaRt, AnnotationDbi
SummarizedExperiment, tximport, jsonlite, S4Vectors,
AnnotationDbi, GenomicFeatures, ensembldb, BiocFileCache,
tibble, GenomeInfoDb, rappdirs, utils, methods
methods, ggplot2, ape, ggtree, ggseqlogo, stats, utils,
gtools, Rdpack (>= 0.7), Biostrings, BiocGenerics, Rcpp,
processx
MASS, pbkrtest (>= 0.4-4), lmerTest, iterators, splines,
colorRamps, gplots, progress, reshape2, lme4 (>= 1.1-10),
doParallel, grDevices, graphics, utils, stats
mzR (>= 2.13.1), BiocGenerics, ProtGenerics, lattice,
RColorBrewer, plyr, RANN, multtest, MassSpecWavelet (>= 1.5.2),
S4Vectors, robustbase
copula, glmnet, BiocParallel, softImpute, stats, genefilter,
edgeR, Matrix
callr (>= 3.0.0.9001), Matrix, Rcpp, BiocFileCache, DT,
MultiAssayExperiment, circlize, curatedTCGAData, foreach,
glmnet, httr, limma, matrixStats, readr, reshape2, tibble,
rmarkdown, graphics, grid, parallel, stats, utils
methods, utils, grDevices, graphics, stats, foreach,
doParallel, S4Vectors, GenomeInfoDb, IRanges, Rsamtools,
bamsignals, DNAcopy, ecp, Biostrings, GenomicAlignments,
reshape2, ggdendro, ggrepel, ReorderCluster, mclust
utils, methods, grDevices, RSQLite, BiocManager, curl,
rappdirs, AnnotationDbi (>= 1.31.19), S4Vectors,
interactiveDisplayBase, httr, yaml, dplyr
Rcpp, doRNG, MASS, data.table, doParallel, parallel, foreach,
methods, stats, graphics, ggplot2, DRIMSeq, BiocParallel
Biobase, BiocGenerics, coda, cowplot, data.table, ggExtra,
ggplot2, graphics, grDevices, KernSmooth, MASS, matrixStats,
methods, Rcpp (>= 0.11.3), S4Vectors, scran, stats, stats4,
SummarizedExperiment, viridis, utils
futile.logger, Rdpack, Matrix, data.table (>= 1.11.8), Rcpp,
stats, graphics, utils, methods
stats, utils, grDevices, lattice, BiocParallel, glmnet, rms,
nsprcomp, ranger, e1071, variancePartition, ggplot2
Rcpp, BiocGenerics, S4Vectors, BiocParallel, stats, methods
BiocManager, biocViews, tibble, stringr, rvest, rex, dplyr,
xml2, readr, httr, htmltools, DT, tools, utils, igraph, tidyr,
jsonlite, gh, RBGL, graph, magrittr
BiocStyle, bookdown, devtools, git2r, httr, knitr, rmarkdown,
rstudioapi, stringr, tools, utils, usethis
Rcpp (>= 0.12.1), S4Vectors, matrixStats, RColorBrewer,
gtools, combinat, GenomeInfoDb (>= 1.11.6), methods,
BiocGenerics, graphics, stats, coda, SummarizedExperiment,
mclust, reshape2, ggplot2, magrittr, purrr, tidyr, dplyr,
tibble, scales, data.table, RcppArmadillo
BiocParallel, GDSArray, GenomeInfoDb, Gviz, IRanges,
S4Vectors, SNPRelate, SummarizedExperiment, data.table, edgeR,
gdsfmt, grDevices, lattice, limma, methods, plyr, qqman,
rappdirs, reshape2, stats, utils
Biobase, dplyr, grid, irlba, lattice, Matrix, matter,
magrittr, mclust, nlme, parallel, signal, sp, stats4, utils,
viridisLite
BiocNeighbors, ggplot2, scater, viridis, cowplot,
SummarizedExperiment, SingleCellExperiment, tidyr, magrittr,
dplyr, ggridges, stats, purrr, listarrays, methods,
BiocParallel
regioneR, IRanges, Rsamtools, SummarizedExperiment,
VariantAnnotation, methods, stats, GenomeInfoDb, GenomicRanges,
cn.mops, utils
flowCore (>= 1.43.10), flowWorkspace (>= 3.31.17), openCyto
(>= 1.11.3), XML, data.table, flowUtils (>= 1.35.7), jsonlite,
RBGL, ncdfFlow, Rgraphviz, Biobase, methods, graph, graphics,
utils, base64enc, plyr, dplyr, grDevices, ggcyto (>=
1.11.4), yaml, lattice
MSnbase, RColorBrewer,stats,preprocessCore,Cairo,png,
lattice,reshape2,gplots,pcaMethods,ggplot2,
limma,knitr,tmvtnorm,norm,impute, stringr, grDevices, graphics,
openxlsx, utils, cp4p (>= 0.3.5), scales, Matrix, vioplot,
imp4p (>= 0.8), highcharter (>= 0.5.0), DAPARdata (>= 1.11.2),
siggenes, graph, lme4, readxl, clusterProfiler, dplyr,
tidyr,AnnotationDbi, tidyverse, vsn, FactoMineR, factoextra
matrixTests, matrixStats, MetaCycle (>= 1.2.0), data.table,
ggplot2, ggExtra, dplyr, broom, shiny, shinyBS,
shinycssloaders, shinydashboard, shinyjs, BiocStyle, rmarkdown,
knitr, kableExtra, magick, VennDiagram, UpSetR, heatmaply,
viridis, plotly, DT, gridExtra, methods, stats,
SummarizedExperiment, BiocGenerics, S4Vectors
tools, jsonlite, RCurl, tidyr, data.table, dplyr, stringr,
stringi, utils, AnnotationHub
MASS, e1071, quadprog, parallel, stats, matrixStats, stringr
BiocGenerics, S4Vectors (>= 0.9.38), IRanges, Rsamtools,
ShortRead, rtracklayer, ggplot2, BiocManager
BiocFileCache, S4Vectors, googleAuthR, httr, jsonlite,
methods, plyr, readr, rlang, stringr, tibble, tidygraph, tidyr,
utils
dplyr, openxlsx, ggplot2, readr, tibble, xml2, tidyr, stats,
utils, hpar, gridExtra
ggplot2, viridis, RColorBrewer, scales, reshape2, stringr,
data.table, GenomeInfoDb, GenomicRanges, stats, IRanges,
grDevices, S4Vectors, digest
utils, R6, data.table, curl, httr, Rlabkey (>= 2.1.136),
Biobase, pheatmap, ggplot2 (>= 3.2.0), scales, stats, gplots,
plotly, heatmaply (>= 0.7.0), jsonlite, rmarkdown,
preprocessCore, flowCore, flowWorkspace, digest
ggExtra, ggsci, ggrepel, clusterProfiler, png, data.table,
pheatmap, sva, DOSE, biomaRt, grid, pathview
Biobase, BiocGenerics, S4Vectors, data.table, ggplot2, plyr,
stringr, abind, methods, parallel, reshape2, stats, stats4,
graphics, utils, blme, SummarizedExperiment(>= 1.5.3), progress
limma, lme4, dplyr, tidyr, nlme, statmod, reshape2,
data.table, matrixStats, stats, utils, ggplot2, grDevices,
graphics, MSstats
lme4, marray, limma, gplots, ggplot2, methods, grid, ggrepel,
preprocessCore, reshape2, survival, statmod, minpack.lm, utils,
grDevices, graphics, stats, doSNOW, snow, foreach, data.table,
MASS, dplyr, tidyr, broom, purrr, stringr, randomForest
BBmisc, Biobase, BiocGenerics, compiler, DESeq2 (>= 1.16.1),
GenomicRanges, ggplot2, grDevices, heatmaply, pheatmap, gplots,
graphics, IRanges, matrixStats, plotly, plyr, pcaMethods,
PRROC, RColorBrewer, Rcpp, S4Vectors, scales, splines, stats,
utils
stats, utils, dplyr, rlang, iterators, parallel, foreach,
doParallel, qvalue, rtracklayer, ggplot2
bnlearn (>= 4.4.1), C50 (>= 0.1.2), MASS, matrixStats,
partykit, Rgraphviz, WGCNA, GO.db, impute, preprocessCore,
grDevices, graphics, stats, utils, parallel, pheatmap (>=
1.0.8)
DAPAR (>= 1.16.11), DAPARdata (>= 1.14.0), rhandsontable,
data.table, shinyjs, DT, shiny, shinyBS, shinyAce, highcharter,
htmlwidgets, webshot, R.utils, shinythemes, XML,later,
shinycssloaders, future, promises, colourpicker, BiocManager,
shinyjqui,shinyTree, shinyWidgets
Rtsne, scatterplot3d, caret, e1071, ggplot2, gridExtra,
networkD3, ggrepel, graphics, stats
downloader (>= 0.4), survminer, grDevices, dplyr, gridExtra,
graphics, tibble, grid, GenomicRanges, XML (>= 3.98.0),
data.table, EDASeq (>= 2.0.0), edgeR (>= 3.0.0), jsonlite (>=
1.0.0), plyr, knitr, methods, biomaRt, ggplot2, ggthemes,
survival, stringr (>= 1.0.0), IRanges, scales, rvest (>=
0.3.0), stats, utils, selectr, S4Vectors, ComplexHeatmap (>=
1.10.2), R.utils, SummarizedExperiment (>= 1.4.0), genefilter,
ConsensusClusterPlus, readr, RColorBrewer, doParallel,
GenomeInfoDb, GenomicFeatures, parallel, tools, tidyr, sva,
limma, purrr, xml2, httr (>= 1.2.1), matlab, circlize, ggrepel
(>= 0.6.3)
ggplot2, tidyr, foreach, doParallel, openxlsx, stringr, RCurl,
parallel
AnnotationHub, AnnotationDbi, BiocGenerics, Biostrings,
BSgenome, data.table (>= 1.9.4), DT, GenomicFeatures,
GenomeInfoDb, GenomeInfoDbData, GenomicAlignments,
GenomicRanges, ggplot2, ggrepel, gsubfn, mirbase.db, S4Vectors,
shiny, shinyFiles, Sushi, yaml
assertthat, shiny, shinyjs, DESeq2, caret, plotly, ggplot2,
rentrez, reshape2, covr, ape, vegan, dplyr, magrittr,
MultiAssayExperiment, SummarizedExperiment, S4Vectors, XML,
forcats, scales, lattice, glmnet, tsne, DMwR, plotROC, DT,
utils, limma, methods, stats, tibble, httr
Rcpp, data.table, BiocParallel, BiocFileCache, rappdirs,
BSgenome, motifStack, grDevices, graphics, stats, utils, grid
SummarizedExperiment, S4Vectors, BiocGenerics, Rcpp, stats,
methods, BiocNeighbors, BiocSingular, Matrix, DelayedArray,
DelayedMatrixStats, scater, BiocParallel
stats, methods, dplyr, tibble, ggplot2, ggsci, superheat,
assertthat, future, doFuture, S4Vectors, BiocGenerics,
BiocParallel, SummarizedExperiment, limma, tmle
IRanges (>= 2.11.16), GenomeInfoDb, scales, stats, graphics,
Biobase, locfit, gtools, data.table (>= 1.11.8), S4Vectors,
R.utils (>= 2.0.0), DelayedMatrixStats (>= 1.5.2), permute,
limma, DelayedArray (>= 0.9.8), Rcpp, BiocParallel, BSgenome,
Biostrings, utils, HDF5Array (>= 1.11.9), rhdf5
stats, plyr, foreach, ggplot2, RColorBrewer, grid, scales,
gtable, grDevices, graphics, matrixStats, doParallel, digest,
gridExtra, methods, reshape2, MAST, S4Vectors, data.table,
Rcpp, RcppEigen, umap, enrichR, stringi, SummarizedExperiment,
MCMCprecision, ggrepel, Rtsne, withr
BiocGenerics (>= 0.25.1), AnnotationDbi (>= 1.27.9),
BiocParallel (>= 1.15.15), bumphunter (>= 1.9.2),
derfinderHelper (>= 1.1.0), GenomeInfoDb (>= 1.3.3),
GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges
(>= 1.17.40), Hmisc, IRanges (>= 2.3.23), methods, qvalue (>=
1.99.0), Rsamtools (>= 1.25.0), rtracklayer, S4Vectors (>=
0.9.38), stats
Biobase (>= 2.41.2), BiocFileCache (>= 1.7.10), BiocGenerics
(>= 0.27.1), BiocParallel (>= 1.15.15), biomaRt (>= 2.37.9),
Biostrings (>= 2.49.2), DESeq (>= 1.33.0), edgeR (>= 3.23.6),
GenomeInfoDb (>= 1.17.4), genomeIntervals (>= 1.37.0),
GenomicAlignments (>= 1.17.3), GenomicRanges (>= 1.33.14),
SummarizedExperiment (>= 1.11.6), graphics, IRanges (>=
2.15.18), LSD (>= 4.0), locfit, methods, parallel, rappdirs (>=
0.3.1), Rsamtools (>= 1.33.7), S4Vectors (>= 0.19.23),
ShortRead (>= 1.39.0), utils
BSgenome, rtracklayer, motifmatchr, TFBSTools, R.utils,
methods, JASPAR2018, GenomeInfoDb, GenomicRanges, IRanges,
BiocGenerics, S4Vectors, utils, parallel, stats
cluster (>= 2.0.7-1), corrplot (>= 0.84), grDevices, graphics,
stats, Rdpack
graphics, stats, utils, methods, abind, gtools, qvalue,
S4Vectors, SummarizedExperiment, matrixStats, svMisc
Biobase, BiocGenerics (>= 0.29.2), graph, grDevices, graphics,
methods, rrcov, stats, utils, stats4, corpcor, Rcpp,
matrixStats, MASS
Biobase, BiocGenerics, graph, graphics, grDevices, lattice,
methods, stats, stats4, utils, RBGL, tools, gridExtra,
Rgraphviz, data.table, dplyr, latticeExtra, Rcpp, RColorBrewer,
stringr, scales, flowViz, matrixStats, digest, RcppParallel
ape, dplyr, ggplot2 (>= 3.0.0), grid, magrittr, methods,
purrr, rlang, rvcheck (>= 0.1.0), tidyr, tidytree (>= 0.2.4),
treeio (>= 1.7.3), utils
methods, BiocGenerics, S4Vectors (>= 0.9.25), IRanges,
GenomeInfoDb, GenomicRanges (>= 1.29.6), GenomicFeatures,
Biostrings, Rsamtools, rtracklayer, AnnotationDbi
plotly, DT, magrittr, dplyr, openxlsx, msigdbr,
graphics, grDevices, RColorBrewer, gplots, futile.logger,
stats, utils, methods, ape, Matrix, fastcluster, dplyr,
HiddenMarkov, ggplot2, edgeR, coin, caTools, reshape, rjags,
fitdistrplus, future, foreach, doParallel, BiocGenerics,
SummarizedExperiment, SingleCellExperiment, tidyr, parallel,
coda, gridExtra, argparse
regioneR, GenomicRanges, IRanges, Rsamtools, stats, graphics,
memoise, rtracklayer, GenomeInfoDb, S4Vectors, biovizBase,
digest, bezier, GenomicFeatures, bamsignals, AnnotationDbi,
grDevices
Matrix, snpStats, VariantAnnotation, GenomeInfoDb, Rsamtools,
GO.db, GenomicFiles (>= 1.13.6), BiocGenerics (>= 0.25.1),
EnsDb.Hsapiens.v75, ensembldb, httr
methods, stats, utils, S4Vectors, rlang, dplyr, tidyr,
forcats, ggplot2, limma, fgsea, ropls, magrittr
data.table, cometExactTest, RColorBrewer, NMF, methods,
wordcloud, grDevices, survival
RobustRankAggreg, ggplot2, stringr, stats, clusterProfiler,
missMethyl, org.Hs.eg.db, reactome.db, BiocParallel, GO.db,
AnnotationDbi, IlluminaHumanMethylation450kanno.ilmn12.hg19,
IlluminaHumanMethylationEPICanno.ilm10b2.hg19
WGCNA, flashClust, dynamicTreeCut, GFA, igraph, linkcomm, MCL,
NMF, biclust, runibic, iBBiG, fabia, BicARE, isa2, s4vd,
BiBitR, rqubic, Biobase, PMA, stats, dbscan, subspace, mclust,
SOMbrero, ppclust, miRspongeR, Rcpp, utils,
SummarizedExperiment, GSEABase, org.Hs.eg.db
plyr, dplyr, dbplyr, magrittr, foreach, parallel, doSNOW,
stringr, mzR, reshape2, fastcluster, ggplot2, DBI, RSQLite,
uuid, jsonlite, KEGGREST
Biostrings, checkmate, dplyr (>= 0.8.0), ggdendro, grDevices,
grid, kableExtra, lubridate, methods, pander, parallel, plotly,
readr, reshape2, rmarkdown, Rsamtools, scales, ShortRead,
stats, stringr, tidyr, tidyselect (>= 0.2.3), truncnorm, utils,
viridisLite, XVector, zoo
dplyr, rlang (>= 0.2.0), magrittr, tidyselect, rtracklayer,
GenomicAlignments, GenomeInfoDb, Rsamtools, S4Vectors (>=
0.17.41), utils
Biobase, corrplot, dplyr, data.table, ggfortify, ggplot2,
grDevices, lazyeval, lubridate, magrittr, pheatmap,
preprocessCore, purrr, pvca, RColorBrewer, readr, reshape2,
rlang, scales, viridis, stats, sva, tidyr, tibble, utils,
wesanderson, WGCNA
ggplot2, reshape2, MASS, RColorBrewer, gridExtra,visNetwork,
gplots, umap, htmlwidgets, S4Vectors, BiocGenerics, grDevices,
stats, utils
SingleCellExperiment (>= 1.4), Seurat (>= 2.3.4), tensorflow,
purrr, irlba, Rtsne, ggplot2, methods, utils, FNN
BiocParallel, cluster, distr, doSNOW, foreach, igraph, irlba,
iterators, matrixStats, M3Drop (>= 1.9.4), parallel, pdist,
proxy, Rcpp (>= 0.12.18), RcppEigen (>= 0.3.3.4.0), ruv, rsvd,
S4Vectors, SingleCellExperiment, SummarizedExperiment
BiocGenerics, SummarizedExperiment, Matrix, dplyr, ggbeeswarm,
grid, DelayedArray, DelayedMatrixStats, methods, S4Vectors,
stats, utils, viridis, Rcpp, BiocNeighbors, BiocSingular,
BiocParallel
Matrix, S4Vectors, SingleCellExperiment, SummarizedExperiment,
xgboost, methods, stats
SummarizedExperiment, S4Vectors, BiocGenerics, BiocParallel,
Rcpp (>= 0.12.14), stats, methods, utils, Matrix, scater,
edgeR, limma, dynamicTreeCut, BiocNeighbors, igraph, statmod,
DelayedArray, DelayedMatrixStats, BiocSingular, dqrng
ape, colourpicker, cluster, ComplexHeatmap, data.table,
DESeq2, DT, ggplot2, ggtree, gridExtra, GSVA (>= 1.26.0),
GSVAdata, limma, MAST, matrixStats, methods, multtest, plotly,
RColorBrewer, Rtsne, S4Vectors, shiny, shinyjs, sva, reshape2,
AnnotationDbi, shinyalert, circlize, enrichR, shinycssloaders,
shinythemes, umap
methods, assertive, stringr, BiocGenerics, Biostrings,
Structstrings, S4Vectors, GenomeInfoDb, rtracklayer
ape, dplyr, jsonlite, magrittr, methods, rlang, tibble,
tidytree (>= 0.2.3), utils
RSQLite, RMySQL, lassopv, randomForest, flare, vbsr,
BiocParallel, RPostgreSQL, methods, DBI, BSgenome,
BSgenome.Hsapiens.UCSC.hg38, BSgenome.Hsapiens.UCSC.hg19,
BSgenome.Mmusculus.UCSC.mm10, SNPlocs.Hsapiens.dbSNP150.GRCh38,
org.Hs.eg.db, Biostrings, GenomicRanges, biomaRt, AnnotationDbi
grDevices, graphics, methods, stats, survival, utils,
siggenes, LogicReg (>= 1.5.3)
methods, stats, utils, ggplot2, ape, ggtree, ggseqlogo,
gtools, Rcpp, Rdpack (>= 0.7), Biostrings, BiocGenerics,
processx, S4Vectors, yaml
mzR (>= 2.13.3), BiocGenerics, ProtGenerics, lattice,
RColorBrewer, plyr, RANN, multtest, MassSpecWavelet (>= 1.5.2),
S4Vectors, robustbase
testthat, knitr, rmarkdown, microbenchmark, pkgdown
testthat, covr, knitr, rmarkdown, pryr, MCMCpack
boot, dynlm, foreign, ineq, KernSmooth, lattice, MASS, nlme,
nnet, np, plm, pscl, quantreg, ROCR, systemfit, tseries, urca
boot, dynlm, foreign, ineq, KernSmooth, lattice, MASS, nlme,
nnet, np, plm, pscl, quantreg, ROCR, sampleSelection, systemfit, tseries, urca
boot, dynlm, foreign, ineq, KernSmooth, lattice, MASS, nlme,
nnet, np, plm, pscl, quantreg, ROCR, sampleSelection, systemfit,
tseries, urca
boot, dynlm, foreign, ineq, KernSmooth, lattice, MASS, mlogit, nlme,
nnet, np, plm, pscl, quantreg, ROCR, sampleSelection, systemfit,
tseries, urca
boot, dynlm, foreign, ineq, KernSmooth, lattice, MASS,
mlogit, nlme, nnet, np, plm, pscl, quantreg, ROCR,
sampleSelection, systemfit, tseries, urca
boot, dynlm, effects, foreign, ineq, KernSmooth, lattice,
MASS, mlogit, nlme, nnet, np, plm, pscl, quantreg, ROCR,
sampleSelection, systemfit, truncreg, tseries, urca
boot, dynlm, effects, foreign, ineq, KernSmooth, lattice,
MASS, mlogit, nlme, nnet, np, plm, pscl, quantreg, ROCR,
sampleSelection, scatterplot3d, systemfit, rgl, truncreg,
tseries, urca
boot, dynlm, effects, foreign, ineq, KernSmooth, lattice,
MASS, mlogit, nlme, nnet, np, plm, pscl, quantreg, ROCR,
sampleSelection, scatterplot3d, strucchange, systemfit, rgl,
truncreg, tseries, urca
boot, dynlm, effects, fGarch, forecast, foreign, ineq,
KernSmooth, lattice, longmemo, MASS, mlogit, nlme, nnet, np,
plm, pscl, quantreg, rgl, ROCR, rugarch, sampleSelection,
scatterplot3d, strucchange, systemfit (>= 1.1-20), truncreg,
tseries, urca, vars
boot, dynlm, effects, fGarch, forecast, foreign, ineq,
KernSmooth, lattice, longmemo, MASS, mlogit, nlme, nnet, np,
plm, pscl, quantreg, rgl, ROCR, rugarch, sampleSelection,
scatterplot3d, strucchange, systemfit, truncreg, tseries, urca,
vars
lme4, MASS, Matrix, nlme, nnet, unmarked, stats4
lme4, MASS, Matrix, nlme, nnet, stats4, survival, unmarked
lme4, MASS, Matrix, nlme, nnet, ordinal, stats4, survival,
unmarked
lme4, MASS, Matrix, nlme, nnet, ordinal, R2jags, R2OpenBUGS,
R2WinBUGS, stats4, survival, unmarked
betareg, coxme, lme4, maxlike, nnet, ordinal, pscl, R2jags,
R2OpenBUGS, R2WinBUGS, survival
betareg, coxme, fitdistrplus, lavaan, lme4, maxlike, nnet,
ordinal, pscl, R2jags, R2OpenBUGS, R2WinBUGS
coxme, lme4, MASS, Matrix, maxlike, nlme, nnet, ordinal,
pscl, R2jags, R2OpenBUGS, R2WinBUGS, stats4, survival,
unmarked, VGAM
betareg, coxme, fitdistrplus, glmmTMB, lavaan, lme4, maxlike,
nnet, ordinal, pscl, R2jags, R2OpenBUGS, R2WinBUGS
betareg, coxme, fitdistrplus, glmmTMB, lavaan, lme4, maxlike,
nnet, ordinal, pscl, R2jags, R2OpenBUGS, R2WinBUGS, jagsUI
betareg, coxme, fitdistrplus, glmmTMB, lavaan, lme4, maxlike,
nnet, ordinal, pscl, R2jags, R2OpenBUGS, R2WinBUGS, jagsUI,
lmerTest
testthat (>= 2.1.0), knitr, rmarkdown, covr, tmle
ape, covr, data.table, geosphere, jpeg, knitr, mapdata, maps,
maptools, mgcv, phytools, rmarkdown, testthat, vegan
ape, covr, data.table, dplyr, ggplot2, jpeg, knitr, mapdata,
maps, maptools, phytools, rmarkdown, testthat, tidyr, vegan
ape, covr, dplyr, ggplot2, jpeg, knitr, mapdata, maps,
maptools, phytools, rmarkdown, testthat, tidyr, vegan
testthat, markdown, knitr, microbenchmark, ggmap, raster,
reshape2
fields, ggplot2, graphics, grDevices, knitr, RANN, rgl,
RefManageR, rmarkdown, terra
fields, ggplot2, graphics, grDevices, knitr, RANN, rgl,
RefManageR, rmarkdown, sf, terra
shiny, shinyBS, knitr, unmarked, AICcmodavg
R.rsp, shiny, shinyBS, knitr, AICcmodavg
knitr, rmarkdown, bookdown, testthat (>= 3.0.0)
knitr, rmarkdown, bookdown, testthat (>= 3.1.5)
testthat (>= 1.0.2), covr (>= 3.0.1), rmarkdown, rstudioapi,
tidyr, ggplot2
covr (>= 3.0.1), ggplot2, rmarkdown, rstudioapi, testthat (>=
1.0.2), tidyr
covr (>= 3.0.1), ggplot2, rmarkdown, rstudioapi, testthat (>=
1.0.2)
covr (>= 3.0.1), curl, readxl, rmarkdown, rstudioapi, rvest
(>= 0.3.2), testthat (>= 1.0.2), xml2 (>= 1.0.0)
cleaner, dplyr, ggplot2, knitr, microbenchmark, rmarkdown,
testthat, tidyr, utils
cleaner, curl, dplyr, ggplot2, knitr, microbenchmark, readxl,
rmarkdown, rstudioapi, rvest, skimr, testthat, tidyr, xml2
cleaner, curl, dplyr, ggplot2, knitr, microbenchmark, pillar,
readxl, rmarkdown, rstudioapi, rvest, skimr, testthat, tidyr,
xml2
cleaner, curl, dplyr, ggplot2, ggtext, knitr, microbenchmark,
pillar, readxl, rmarkdown, rstudioapi, rvest, skimr, tidyr,
tinytest, xml2
curl, dplyr, ggtext, knitr, progress, readxl, rmarkdown,
rvest, tinytest, xml2
rmarkdown, knitr, testthat, dplyr, purrr, tibble, tidyr,
openssl
rgeos, rgdal, knitr, devtools, rmarkdown
qpcR, sandwich, testthat (>= 3.0.0), xts
plyr, reshape2, ggplot2, knitr, testthat
shiny, plyr, reshape2, dplyr, ggplot2, viridis, knitr,
testthat
shiny, plyr, reshape2, dplyr, ggplot2, viridis, knitr,
rmarkdown, testthat
testthat (>= 0.10.0), lsmeans, knitr, rmarkdown, ggplot2,
phia, tidyr, pander, Cairo
testthat (>= 0.10.0), lsmeans (>= 2.22), knitr, rmarkdown,
ggplot2, tidyr, pander, Cairo, DescTools
testthat (>= 0.10.0), lsmeans (>= 2.22), knitr, rmarkdown,
ggplot2, tidyr, pander, Cairo, lmerTest, cluster, phia,
survival, DescTools
testthat (>= 0.10.0), emmeans, knitr, rmarkdown, ggplot2,
tidyr, pander, lmerTest, cluster, phia, survival, psych,
stringi, DescTools
testthat (>= 0.10.0), emmeans, knitr, rmarkdown, ggplot2,
tidyr, pander, lmerTest, cluster, phia, survival, psych,
stringi, DescTools, covr
testthat (>= 0.10.0), knitr, rmarkdown, ggplot2, tidyr,
pander, lmerTest, cluster, phia, survival, psych, stringi,
DescTools, covr
testthat (>= 0.10.0), knitr, rmarkdown, ggplot2, tidyr,
pander, lmerTest, cluster, phia, survival, psych, stringi,
DescTools, tibble, covr
knitr, rmarkdown, spelling, testthat (>= 3.0.0)
DT, Rcpp, rmarkdown, roxygen2, knitr, testthat, readr,
plotly, devtools
knitr, testthat, BSgenome.Hsapiens.UCSC.hg38,
BSgenome.Mmusculus.UCSC.mm9, BSgenome.Mmusculus.UCSC.mm10,
rmarkdown
testthat, knitr, rmarkdown, metap, EmpiricalBrownsMethod
mclust, grid, foreach, dqrng, parallelDist, knitr (>= 1.12),
rmarkdown (>= 0.9)
mclust, grid, foreach, dqrng, parallelDist, knitr (>= 1.12),
rmarkdown (>= 0.9), reshape2, ggplot2
knitr, markdown, testthat (>= 2.1.0), rmarkdown, roxygen2
poppr, mgcv, dplyr, ggplot2, GGally, ggforce, ggrepel, ggsci,
gggibbous, gganimate, patchwork
RColorBrewer (>= 1.0-2), truncnorm (>= 1.0-5), knitr,
rmarkdown, testthat
RColorBrewer (>= 1.0-2), truncnorm (>= 1.0-5), knitr,
rmarkdown, testthat (>= 3.0.0), covr
RColorBrewer (>= 1.0-2), truncnorm (>= 1.0-5), knitr,
rmarkdown, testthat (>= 3.0.0), covr, ggridges (>= 0.5.3)
testthat, knitr, rmarkdown, mockery, httptest
ProTrackR (>= 0.3.4), adfExplorer (>= 0.1.4)
DT, ggplot2, pander, rmarkdown, shinythemes, spelling
knitr, Hmisc, VGAM, coda, testthat, lmodel2
knitr, Hmisc, coda, testthat, lmodel2, markdown
testthat, knitr, rmarkdown, rlang, tibble
testthat, knitr, rmarkdown, rlang, tibble, rJava
testthat, stringr, knitr, rmarkdown, tibble, rJava
testthat, stringr, knitr, rmarkdown, tibble, rJava, rcmdcheck
limma, Biobase, GEOquery, knitr, rmarkdown
cluster, covr, knitr, rmarkdown, testthat (>= 2.1.0)
knitr, biclust, calibrate, mvtnorm, SportsAnalytics,
RColorBrewer, plotrix, abind
knitr, calibrate, mvtnorm, SportsAnalytics, RColorBrewer,
plotrix, abind
knitr, rmarkdown, testthat (>= 2.1.0), ArchaeoPhases.dataset
(>= 0.1.0)
rmarkdown, knitr, spelling, testthat (>= 3.0.0)
knitr, testthat, httpuv, shiny, AzureRMR, AzureGraph
knitr, rmarkdown, testthat, httpuv, shiny, AzureRMR,
AzureGraph
knitr, rmarkdown, testthat, httpuv, shiny, shinyjs, AzureRMR,
AzureGraph
knitr, testthat, uuid, MASS, bcrypt, randomForest, plumber,
RestRserve, AzureKeyVault
knitr, rmarkdown, testthat, uuid, MASS, bcrypt, randomForest,
plumber, RestRserve, AzureKeyVault
AzureTableStor, mongolite, DBI, odbc, dplyr, testthat, knitr,
rmarkdown
AzureRMR, vctrs, knitr, rmarkdown, testthat
bit64, knitr, testthat, AzureGraph, AzureStor (>= 2.0.0),
rmarkdown
bit64, knitr, testthat, tidyr, AzureGraph, AzureStor (>=
2.0.0), rmarkdown
testthat, knitr, rmarkdown, lme4, gbm, MASS
testthat, knitr, rmarkdown, lme4, gbm, MASS, mockery
knitr, rmarkdown, testthat, httpuv, AzureStor
knitr, rmarkdown, jsonlite, testthat, processx
readr, knitr, rmarkdown, jsonlite, testthat, processx
AzureAuth, readr, knitr, rmarkdown, jsonlite, testthat,
processx, uuid
knitr, rmarkdown, testthat, parallel, AzureKeyVault,
AzureVMmetadata
MASS, knitr, GGally, rmarkdown, roxygen2
MASS, knitr, GGally, rmarkdown, roxygen2, dplyr
MASS, knitr, GGally, rmarkdown, roxygen2, dplyr, glmbb,
pkgdown, testthat, covr
MASS, knitr, ggplot2, GGally, rmarkdown, roxygen2, dplyr,
glmbb, pkgdown, testthat, covr
MASS, knitr, ggplot2, GGally, rmarkdown, roxygen2, dplyr,
glmbb, testthat, covr
knitr, testthat (>= 2.1.0), parallel, MASS, wmtsa, formatR
knitr, testthat (>= 2.1.0), parallel, MASS, formatR
MASS, ggplot2, grid, R2jags, R2OpenBUGS, mgcv
MASS, ggplot2, grid, R2jags, R2OpenBUGS, INLA, mgcv
R2jags, R2OpenBUGS, ggplot2, grid, INLA, splancs, mgcv
R2jags, R2OpenBUGS, ggplot2, grid, INLA, splancs, mgcv, ldr
R2jags, R2OpenBUGS, ggplot2, grid, INLA, splancs, mgcv, ldr,
shiny, shinythemes
R2jags, R2OpenBUGS, ggplot2, grid, INLA, splancs, mgcv, ldr,
shiny, shinythemes, knitr, rmarkdown, plotly
coda, grid, INLA, knitr, markdown, Matrix, MCMCvis, mgcv,
plotly, rmarkdown, rstan, RColorBrewer, R2jags, splancs,
testthat (>= 2.1.0), vdiffr, withr
coda, grid, INLA, knitr, markdown, MCMCvis, mgcv, plotly,
rjags, rmarkdown, rstan, RColorBrewer, splancs, testthat (>=
2.1.0), vdiffr, withr
ssgraph, huge, pROC, ggplot2, tmvtnorm, skimr, knitr,
rmarkdown
ssgraph, huge, tmvtnorm, skimr, knitr, rmarkdown
knitr, rmarkdown, biomaRt, GEOquery, base64enc, htmltools,
webshot, RCurl
knitr, rmarkdown, biomaRt, GEOquery, base64enc, webshot
knitr, rmarkdown, biomaRt, GEOquery, base64enc, htmltools,
webshot
testthat, polycor, survival, pscl, metafor, knitr, rmarkdown
testthat, polycor, survival, pscl, metafor, knitr, rmarkdown,
lmtest
data.table (>= 1.9.6), lme4, SKAT, testthat, covr
data.table (>= 1.9.6), lme4, SKAT, testthat
abind (>= 1.4-5), assortnet (>= 0.12), networktools (>=
1.2.3), mice (>= 3.8.0), psych, knitr, rmarkdown
knitr, rmarkdown, testthat, maptools, maps
survey, intsvy, svyPVpack, lavaan.survey, Hmisc
survey, intsvy, svyPVpack, lavaan.survey, Hmisc, car
car, Hmisc, intsvy, lavaan.survey, lme4, survey, svyPVpack
survey, intsvy, svyPVpack, lavaan.survey, Hmisc, car, lme4
car, Hmisc, intsvy, lavaan.survey, lme4, svyPVpack
car, Hmisc, intsvy, lavaan.survey, lme4, LSAmitR, svyPVpack
car, Hmisc, intsvy, lavaan, lavaan.survey, lme4, LSAmitR,
svyPVpack
graphics, grDevices, lavaan, lavaan.survey, mitools, survey,
TAM
testthat, knitr, rmarkdown, pacman (>= 0.5.1), rstantools (>=
2.1.1), RcppParallel (>= 5.0.1)
testthat, knitr, rmarkdown, pacman (>= 0.5.1), RcppParallel
(>= 5.0.1)
httr, knitr, rmarkdown, testthat, covr, proj4, MCMCglmm,
rvest, prettydoc, usethis, taxize, lmfor
httr, knitr, rmarkdown, testthat, covr, proj4, MCMCglmm,
rvest, prettydoc, usethis, taxize, lmfor, sf
knitr, rmarkdown, testthat, covr, httr, rvest, prettydoc,
usethis, MCMCglmm, taxize, lmfor, sf
knitr, rmarkdown, prettydoc, testthat, httr, curl, sf
covr, dggridR, knitr, leaflet.extras, leafpm, maps, rgbif,
rmarkdown, testthat, utils, vegan
covr, knitr, leaflet.extras, leafpm, mapedit (>= 0.5), maps,
rgbif, rmarkdown, shiny (>= 1.0), testthat, utils, vegan
biogeo, CoordinateCleaner, covr, dggridR, knitr, KnowBR,
leaflet.extras, leafpm, maps, rgbif, rmarkdown, taxize,
testthat, utils, vegan
covr, knitr, leaflet.extras, leafpm, maps, rmarkdown, shiny
(>= 1.0), testthat, utils, vegan
RUnit (>= 0.4.22), fPortfolio (>= 2100.78), sn, corpcor
covr, knitr, rmarkdown, ggplot2, dplyr, tidyr, testthat
covr, knitr, rmarkdown, ggplot2, tidyr, testthat
GreedyEPL, Rmpfr, gmp, knitr, rmarkdown, testthat
GreedyEPL, Rmpfr, gmp, knitr, rmarkdown, testthat, BNPmix
cplexAPI, testthat, glmnet, knitr, rmarkdown, ggplot2,
ggpubr, dplyr, kableExtra, devtools, BiocStyle, bestsubset
devtools, glmnet, ISLR, kableExtra, knitr, MASS, rmarkdown,
sparsenet
devtools, ISLR, kableExtra, knitr, MASS, rmarkdown, sparsenet
testthat, stats, utils, knitr, rmarkdown
knitr, rmarkdown, testthat, sf, surveillance, spdep,
RColorBrewer, deldir
knitr, rmarkdown, testthat, sf, surveillance, spdep,
RColorBrewer, deldir, RSQLite
testthat, gsl, covr, knitr, rmarkdown, lintr (>= 1.0.0)
testthat, covr, knitr, rmarkdown, gsl, lintr (>= 1.0.0)
doMC, doParallel, knitr, rmarkdown, testthat
Biobase, covr, forcats, ggplot2, GO.db, GSEABase, knitr,
org.Hs.eg.db, reactome.db, rmarkdown, spelling, testthat (>=
2.1.0), utf8 (>= 1.1.4)
Biobase, covr, forcats, ggplot2, GO.db, GSEABase, knitr,
org.Hs.eg.db, reactome.db, rmarkdown, spelling, testthat (>=
2.1.0)
doMC, testthat, knitr, markdown, graphics
doMC, foreach, testthat, knitr, markdown, arm, lme4, xtable,
languageR
doMC, testthat, knitr, markdown, arm, lme4, xtable, languageR
knitr, pkgdown, rmarkdown, testthat (>= 2.1.0), covr
testthat, gtools (>= 3.8.1), knitr, PerMallows (>= 1.13),
rmarkdown, Rankcluster (>= 0.94)
testthat, gtools (>= 3.8.1), knitr, PerMallows (>= 1.13),
rmarkdown, Rankcluster (>= 0.94), covr
testthat, gtools (>= 3.8.1), knitr, rmarkdown, PerMallows (>=
1.13), covr
testthat, gtools (>= 3.8.1), knitr, rmarkdown, covr, parallel
(>= 3.5.1)
R.rsp, testthat (>= 2.0), label.switching (>= 1.7), readr (>=
1.3.1), stringr (>= 1.4.0), gtools (>= 3.8.1), rmarkdown, covr,
parallel (>= 3.5.1)
R.rsp, knitr, testthat (>= 3.0.0), label.switching (>= 1.7),
rmarkdown, covr, parallel (>= 3.5.1)
R.rsp, xml2, knitr, testthat (>= 3.0.0), label.switching (>=
1.7), rmarkdown, covr, parallel (>= 3.5.1)
knitr, rmarkdown, covr, spelling, tgp, testthat
Rgraphviz, shiny, googleVis, cyjShiny, qtl, qtlnet
rmarkdown, knitr, testthat (>= 3.0.0), ggplot2, kableExtra
knitr, MCMCpack, rmarkdown, rstan (>= 2.10.1), rstanarm,
testthat
datasets, knitr, MCMCpack, rjags, rmarkdown, rstan (>=
2.10.1), rstanarm, testthat, covr
brms, datasets, knitr, MCMCpack, rjags, R2jags, R2WinBUGS,
rmarkdown, rstan (>= 2.10.1), rstanarm, runjags, testthat, covr
datasets, knitr, rmarkdown, rstan (>= 2.10.1), testthat, covr
R.rsp, BDgraph, data.table, plyr, scrime, gRbase
R.rsp, BDgraph, data.table, plyr, scrime
ggplot2, scales, testthat, vdiffr, covr, rjags
scales, testthat, vdiffr, covr, rjags, rstan
scales, testthat, vdiffr, covr, knitr, rstan, BayesFactor,
rmarkdown
scales, testthat, vdiffr, covr, knitr, rstan, rjags, runjags,
BayesFactor, rmarkdown
rmarkdown, rstantools, openxlsx, hexbin, MASS
rmarkdown, rstantools, openxlsx, hexbin, MASS, ggmcmc,
magrittr
openxlsx, hexbin, MASS, ggmcmc, magrittr
openxlsx, hexbin, MASS, ggmcmc, magrittr, markdown
openxlsx, hexbin, MASS, magrittr, markdown, rmarkdown
hexbin, MASS, magrittr, markdown, rmarkdown
testthat, knitr, rmarkdown, covr, patchwork
glue, purrr, testthat, knitr, rmarkdown, covr, patchwork
curl, httr, knitr, patchwork, purrr, rmarkdown, testthat
DEoptim, lhs, sensitivity, knitr, rmarkdown, roxygen2,
testthat, gap
DEoptim, lhs, sensitivity, knitr, rmarkdown, roxygen2,
testthat
knitr, testthat (>= 3.0.0), rmarkdown, covr
testthat, knitr, rmarkdown, dplyr, ggplot2
HDF5Array, DelayedArray, Matrix, BiocStyle, knitr, rmarkdown,
ggplot2, microbenchmark
knitr, rmarkdown, gridExtra, expm, MCS, quantmod, codetools
knitr, rmarkdown, testthat (>= 2.1.0), covr
knitr, rmarkdown, testthat, prettydoc, DT
markdown, rmarkdown, knitr, testthat (>= 2.0.0), covr
BiocStyle, BiocVersion, remotes, testthat, withr, curl, knitr
BiocVersion, remotes, rmarkdown, testthat, withr, curl, knitr
BiocStyle, BiocVersion, remotes, testthat, knitr
BiocStyle, BiocVersion, remotes, testthat, knitr, withr
MASS, mgcv, cluster, Rcmdr (>= 1.3-4), car, RODBC, rpart, effects, multcomp, ellipse, maptree, sp, splancs, spatial, akima
MASS, mgcv, cluster, Rcmdr (>= 1.3-4), car, RODBC, rpart, effects, multcomp, ellipse, maptree, sp, splancs, spatial, akima, nnet
MASS, mgcv, cluster, Rcmdr (>= 1.3-14), car, RODBC, rpart, effects, multcomp, ellipse, maptree, sp, splancs, spatial, akima, nnet
MASS, mgcv, cluster, Rcmdr (>= 1.3-14), car, RODBC, rpart,
effects, multcomp, ellipse, maptree, sp, splancs, spatial,
akima, nnet
MASS, mgcv, cluster, Rcmdr (>= 1.3-14), car, RODBC, rpart,
effects, multcomp, ellipse, maptree, sp, splancs, spatial,
akima, nnet, dismo, raster (>= 2.0-31), gbm, randomForest, gam,
earth, mda, kernlab
MASS, mgcv, cluster, car, RODBC, rpart, effects, multcomp,
ellipse, maptree, sp, splancs, spatial, akima, nnet, dismo,
raster (>= 2.0-31), gbm, randomForest, gam, earth, mda, kernlab
permute, lattice, MASS, mgcv, cluster, car, RODBC, rpart,
effects, multcomp, ellipse, maptree, sp, splancs, spatial,
akima, nnet, dismo, raster (>= 2.0-31), rgdal, maxlike, gbm,
randomForest, gam (>= 1.15), earth, mda, kernlab, e1071,
glmnet, tools, methods, bootstrap, PresenceAbsence, geosphere,
maptools, ENMeval, red, rgeos, igraph
permute, lattice, MASS, mgcv, cluster, car, RODBC, rpart,
effects, multcomp, ellipse, maptree, sp, splancs, spatial,
akima, nnet, dismo, raster (>= 2.8-19), rgdal, maxlike, gbm,
randomForest, gam (>= 1.15), earth, mda, kernlab, e1071,
glmnet, tools, methods, bootstrap, PresenceAbsence, geosphere,
maptools, ENMeval, red, rgeos, igraph, Rlof, maxnet, party,
readxl
permute, lattice, MASS, mgcv, cluster, car, RODBC, rpart,
effects, multcomp, ellipse, maptree, sp, splancs, spatial,
akima, nnet, dismo, raster (>= 2.8-19), rgdal, maxlike, gbm,
randomForest, gam (>= 1.15), earth, mda, kernlab, e1071,
glmnet, tools, methods, bootstrap, PresenceAbsence, geosphere,
maptools, ENMeval, red, rgeos, igraph, Rlof, maxnet, party,
readxl, colorspace
permute, lattice, MASS, mgcv, cluster, car, RODBC, rpart,
effects, multcomp, ellipse, maptree, sp, splancs, spatial,
akima, nnet, dismo, raster (>= 2.8-19), rgdal, maxlike, gbm,
randomForest, gam (>= 1.15), earth, mda, kernlab, e1071,
glmnet, tools, methods, bootstrap, PresenceAbsence, geosphere,
maptools, ENMeval, red, rgeos, igraph, Rlof, maxnet, party,
readxl, colorspace, dplyr, rlang
vegan3d, rgl, permute, lattice, MASS, mgcv, cluster, car,
RODBC, rpart, effects, multcomp, ellipse, maptree, sp, splancs,
spatial, akima, nnet, dismo, raster (>= 2.8-19), rgdal,
maxlike, gbm, randomForest, gam (>= 1.15), earth, mda, kernlab,
e1071, glmnet, tools, methods, bootstrap, PresenceAbsence,
geosphere, maptools, ENMeval, red, rgeos, igraph, Rlof, maxnet,
party, readxl, colorspace, dplyr, rlang
vegan3d, rgl, permute, lattice, MASS, mgcv, cluster, car,
RODBC, rpart, effects, multcomp, ellipse, maptree, sp, splancs,
spatial, akima, nnet, dismo, raster (>= 2.8-19), rgdal,
maxlike, gbm, randomForest, gam (>= 1.15), earth, mda, kernlab,
e1071, glmnet, tools, methods, bootstrap, PresenceAbsence,
geosphere, maptools, ENMeval, red, rgeos, igraph, Rlof, maxnet,
party, readxl, colorspace, dplyr, rlang, sf, blockCV
vegan3d, rgl, permute, lattice, MASS, mgcv, cluster, car,
RODBC, rpart, effects, multcomp, ellipse, sp, splancs, spatial,
akima, nnet, dismo, raster (>= 3.5-11), terra (>= 1.4-22),
rgdal, maxlike, gbm, randomForest, gam (>= 1.15), earth, mda,
kernlab, e1071, glmnet, tools, methods, bootstrap,
PresenceAbsence, geosphere, maptools, ENMeval, red, rgeos,
igraph, Rlof, maxnet, party, readxl, colorspace, dplyr, rlang,
sf, blockCV
vegan3d, rgl, permute, lattice, MASS, mgcv, cluster, car,
RODBC, rpart, effects, multcomp, ellipse, sp, splancs, spatial,
interp, nnet, dismo, raster (>= 3.5-11), terra (>= 1.4-22),
rgdal, maxlike, gbm, randomForest, gam (>= 1.15), earth, mda,
kernlab, e1071, glmnet, tools, methods, bootstrap,
PresenceAbsence, geosphere, maptools, ENMeval, red, rgeos,
igraph, Rlof, maxnet, party, readxl, colorspace, dplyr, rlang,
sf, blockCV, envirem, concaveman
vegan3d, rgl, permute, lattice, MASS, mgcv, cluster, car,
RODBC, rpart, effects, multcomp, ellipse, sp, splancs, spatial,
akima, nnet, dismo, raster (>= 3.5-11), terra (>= 1.4-22),
rgdal, maxlike, gbm, randomForest, gam (>= 1.15), earth, mda,
kernlab, e1071, glmnet, tools, methods, bootstrap,
PresenceAbsence, geosphere, maptools, ENMeval, red, rgeos,
igraph, Rlof, maxnet, party, readxl, colorspace, dplyr, rlang,
sf, blockCV, envirem, concaveman
vegan3d, rgl, permute, lattice, MASS, mgcv, cluster, car,
RODBC, rpart, effects, multcomp, ellipse, sp, splancs, spatial,
nnet, dismo, raster (>= 3.5-11), terra (>= 1.4-22), rgdal,
maxlike, gbm, randomForest, gam (>= 1.15), earth, mda, kernlab,
e1071, glmnet, tools, methods, bootstrap, PresenceAbsence,
geosphere, maptools, ENMeval, red, rgeos, igraph, Rlof, maxnet,
party, readxl, colorspace, dplyr, rlang, sf, blockCV, envirem,
concaveman
MASS, mgcv, cluster, car, RODBC, rpart, effects, multcomp,
ellipse, maptree, sp, splancs, spatial, akima, nnet, dismo,
raster (>= 2.0-31), rgdal, gbm, randomForest, gam, earth, mda,
kernlab, e1071
vegan (>= 1.17-12), permute, lattice, MASS, mgcv, cluster,
car, RODBC, rpart, effects, multcomp, ellipse, maptree, sp,
splancs, spatial, akima, nnet, dismo, raster (>= 2.0-31),
rgdal, gbm, randomForest, gam, earth, mda, kernlab, e1071,
tools
vegan (>= 1.17-12), permute, lattice, MASS, mgcv, cluster,
car, RODBC, rpart, effects, multcomp, ellipse, maptree, sp,
splancs, spatial, akima, nnet, dismo, raster (>= 2.0-31),
rgdal, gbm, randomForest, gam, earth, mda, kernlab, e1071,
tools, methods
permute, lattice, MASS, mgcv, cluster, car, RODBC, rpart,
effects, multcomp, ellipse, maptree, sp, splancs, spatial,
akima, nnet, dismo, raster (>= 2.0-31), rgdal, gbm,
randomForest, gam, earth, mda, kernlab, e1071, tools, methods,
bootstrap
permute, lattice, MASS, mgcv, cluster, car, RODBC, rpart,
effects, multcomp, ellipse, maptree, sp, splancs, spatial,
akima, nnet, dismo, raster (>= 2.0-31), rgdal, gbm,
randomForest, gam, earth, mda, kernlab, e1071, tools, methods,
bootstrap, PresenceAbsence, geosphere
permute, lattice, MASS, mgcv, cluster, car, RODBC, rpart,
effects, multcomp, ellipse, maptree, sp, splancs, spatial,
akima, nnet, dismo, raster (>= 2.0-31), rgdal, maxlike, gbm,
randomForest, gam, earth, mda, kernlab, e1071, glmnet, tools,
methods, bootstrap, PresenceAbsence, geosphere, maptools
permute, lattice, MASS, mgcv, cluster, car, RODBC, rpart,
effects, multcomp, ellipse, maptree, sp, splancs, spatial,
akima, nnet, dismo, raster (>= 2.0-31), rgdal, maxlike, gbm,
randomForest, gam, earth, mda, kernlab, e1071, glmnet, tools,
methods, bootstrap, PresenceAbsence, geosphere, maptools,
ENMeval
permute, lattice, MASS, mgcv, cluster, car, RODBC, rpart,
effects, multcomp, ellipse, maptree, sp, splancs, spatial,
akima, nnet, dismo, raster (>= 2.0-31), rgdal, maxlike, gbm,
randomForest, gam (>= 1.15), earth, mda, kernlab, e1071,
glmnet, tools, methods, bootstrap, PresenceAbsence, geosphere,
maptools, ENMeval
knitr, rmarkdown, ggplot2, testthat(>= 2.0.0)
KernSmooth, rgl (>= 0.79), vcd, xlsReadWrite
testthat, knitr, rmarkdown, RSpectra, dplyr (>= 1.0.0), tidyr
(>= 1.1.0), ggplot2 (>= 3.3.2), ggrepel, pracma, mvtnorm
Seurat, plyr, knitr, rmarkdown, testthat
BiocStyle, knitr, rmarkdown, XML, rentrez, phyloseq
prettydoc, knitr, rmarkdown, XML, rentrez, phyloseq
prettydoc, knitr, rmarkdown, XML, rentrez
prettydoc, knitr, rmarkdown, XML, rentrez, httr
tiff, ijtiff, openxlsx, parallel, scatterplot3d
mlbench, rFerns, randomForest, testthat, xgboost
mlbench, rFerns, randomForest, testthat, xgboost, survival
Matrix.utils, stringr, knitr, rmarkdown, ggplot2
cvAUC, pbapply, pROC, R.rsp, riskRegression, survival,
testthat
pbapply, R.rsp, riskRegression, survival, testthat
cvAUC, mvtnorm, pbapply, pROC, R.rsp, survival, testthat
cvAUC, mvtnorm, pbapply, pROC, R.rsp, riskRegression,
survival, testthat
MOEADr, smoof, knitr, rmarkdown, car, dplyr, ggplot2,
ggridges
MOEADr, smoof, knitr, rmarkdown, car, dplyr, ggplot2,
ggridges, pkgdown
MOEADr, smoof, knitr, rmarkdown, car, dplyr, pkgdown
smoof, knitr, rmarkdown, car, dplyr, pkgdown
boot, deldir, foreign, grid, maptools, Matrix, nlme,
shapefiles, sp, spdep, splines
boot, deldir, foreign, grid, maptools, Matrix, nlme,
shapefiles, spdep, splines
boot, deldir, foreign, grid, maptools, Matrix, nlme,
shapefiles, splines
boot, foreign, grid, maptools, Matrix, nlme, shapefiles,
splines
doParallel, GSIF, randomForest, lubridate, raster, sp, knitr,
mapview, rmarkdown
doParallel, GSIF, randomForest, lubridate, raster, sp, knitr,
mapview, rmarkdown, sf, scales, parallel, latticeExtra
doParallel, GSIF, randomForest, lubridate, raster, sp, knitr,
mapview, rmarkdown, sf, scales, parallel, latticeExtra,
virtualspecies, gridExtra, viridis, rgeos, reshape, FNN
doParallel, GSIF, randomForest, lubridate, raster, sp, knitr,
mapview, rmarkdown, sf, scales, parallel, latticeExtra,
virtualspecies, gridExtra, viridis, rgeos
doParallel, GSIF, randomForest, lubridate, raster, sp, knitr,
mapview, rmarkdown, sf, scales, parallel, latticeExtra,
virtualspecies, gridExtra, viridis, rgeos, stars, scam
doParallel, randomForest, lubridate, raster, sp, knitr,
mapview, rmarkdown, sf, scales, parallel, latticeExtra,
virtualspecies, gridExtra, viridis, rgeos, stars, scam
doParallel, randomForest, lubridate, raster, sp, knitr,
mapview, rmarkdown, sf, scales, parallel, latticeExtra,
virtualspecies, gridExtra, viridis, rgeos, stars, scam, terra,
rnaturalearth
doParallel, randomForest, lubridate, raster, sp, knitr,
mapview, rmarkdown, sf, scales, parallel, latticeExtra,
virtualspecies, gridExtra, viridis, rgeos, stars, scam, terra,
rnaturalearth, rgdal
knitr, rmarkdown, kableExtra, imager, lattice
knitr, rmarkdown , FNN , e1071 , missForest , knockoff ,
caret , smotefamily , xgboost , bartMachine , glmnet ,
randomForest
psych, mvtnorm, polycor, cluster, R2jags, rjags, tcltk
tcltk, rjags, R2jags, psych, mvtnorm, polycor
testthat, leaflet, knitr, rmarkdown, ggplot2
TAM, mirt, sirt, BIFIEsurvey, NPCD, ACTCD, pks
BIFIEsurvey, miceadds, mirt (>= 1.17), sirt, TAM
BIFIEsurvey, GDINA, miceadds, mirt, sirt, TAM
BIFIEsurvey, GDINA, lattice, miceadds, mirt, psych, sirt, TAM
BIFIEsurvey, GDINA, lattice, miceadds, mirt, sirt, TAM
BIFIEsurvey, GDINA, lattice, miceadds, mirt, ROI, sirt, TAM
BIFIEsurvey, lattice, MASS, miceadds, ROI, sirt, sfsmisc
BIFIEsurvey, lattice, MASS, miceadds, ROI, sfsmisc
covr, knitr, rmarkdown, duckdb (>= 0.5.0), RPostgres, odbc,
ggplot2, SqlRender, testthat (>= 3.0.0)
knitr, ggplot2, tidyr (> 1.1.1), curl, rmarkdown
knitr, R.rsp, ggplot2, tidyr (> 1.1.1), curl, rmarkdown,
vtable, compareGroups
BSGW, BayesMixSurv, Hmisc, randomForestSRC, RcppArmadillo
testthat, covr, ggplot2, reshape2, plyr, MASS, knitr
testthat, covr, ggplot2, reshape2, plyr, MASS, rmarkdown,
knitr
BSDA, lsr, janitor, knitr, productplots, rmarkdown
BSDA, lsr, janitor, knitr, productplots, rmarkdown, stringi
BSDA, ggthemes, hrbrthemes, janitor, knitr, lsr, magrittr,
productplots, pwr, rmarkdown, stringi, tibble, testthat,
tidyselect
limSolve, testthat, knitr, rmarkdown, tufte, RSVGTipsDevice
limSolve, testthat, knitr, rmarkdown, tufte
circlize, clustree, ComplexHeatmap, plotly, Seurat (>= 4.0),
testthat, knitr, rmarkdown
knitr, rmarkdown, testthat, statmod (>= 1.2.2), cowplot
BTYD, covr, doFuture, doParallel, knitr, rmarkdown, testthat
BTYD, covr, doFuture, doParallel, future, knitr, rmarkdown,
testthat
covr, doFuture, doParallel, future, knitr, rmarkdown,
testthat
covr, future, knitr, rmarkdown, testthat
knitr, htmltools, readxl, testthat, rmarkdown, widgetframe
knitr, rmarkdown,remotes,pwr,ComplexHeatmap,
spatialfil,HiCseg,igraph,visNetwork,circlize,
InteractionSet,GenomicRanges,GenomicFeatures,IRanges,rslurm,
shinythemes,shinycssloaders,DT,logging,heatmaply,
S4Vectors,BiocManager,shinyjs,htmltools,htmlwidgets,
GenomeInfoDb,BSgenome.Hsapiens.UCSC.hg19,tibble
knitr, rmarkdown,remotes,pwr,ComplexHeatmap,
HiCseg,igraph,visNetwork,circlize,
InteractionSet,GenomicRanges,GenomicFeatures,IRanges,rslurm,
shinythemes,shinycssloaders,DT,logging,heatmaply,
S4Vectors,BiocManager,shinyjs,htmltools,htmlwidgets,
GenomeInfoDb,BSgenome.Hsapiens.UCSC.hg19,tibble,smoothie
knitr, remotes,pwr,ComplexHeatmap,rmarkdown,
HiCseg,igraph,visNetwork,circlize,plotly,
InteractionSet,GenomicRanges,GenomicFeatures,IRanges,rslurm,
shinythemes,shinycssloaders,DT,logging,heatmaply,
S4Vectors,BiocManager,shinyjs,htmltools,htmlwidgets,
GenomeInfoDb,BSgenome.Hsapiens.UCSC.hg19,tibble,smoothie
CGHcall, CGHregions, snow, CNVtools, xtable, MASS
CGHcall, CGHregions, CNVtools, xtable, MASS
CGHcall, CGHregions, CNVtools, xtable, MASS, Biobase, CGHbase
snowfall, lars, ridge, FNN, tree, randomForest
snowfall, lars, ridge, tree, randomForest
rmarkdown, spelling, knitr, testthat (>= 3.0.0), Compind,
matrixStats, performance
rmarkdown, spelling, knitr, testthat (>= 3.0.0), Compind,
matrixStats, performance, covr
RUnit, NMF, ConsensusClusterPlus, rgl, kohonen
convey, lavaan.survey, srvyr, surf, tidyverse
baggr, grf, BART, gnm, covr, knitr, rmarkdown, testthat (>=
3.0.0)
testthat, CSTools, knitr, markdown, rmarkdown
zeallot, testthat, knitr, markdown, rmarkdown, startR
knitr, rmarkdown, huge, ggplot2, gplots, RColorBrewer,
testthat
ape, kableExtra, knitr, readxl, rmarkdown, survival, testthat
(>= 3.0.0), tidyverse
testthat, knitr, rmarkdown, ggplot2, ggrepel
knitr, rmarkdown, testthat, nnls, reticulate, lpSolveAPI,
Rglpk, slam
knitr, rmarkdown, testthat, nnls, Rglpk, slam, Rmosek,
gurobi, Rcplex, rcbc, covr
knitr, rmarkdown, testthat, nnls, slam, covr
knitr, rmarkdown, testthat, nnls, Rglpk, slam, Rmosek,
gurobi, Rcplex, rcbc
testthat (>= 2.1.0), Seurat, SingleCellExperiment,
SummarizedExperiment, knitr, rmarkdown
ggplot2, ggspatial, knitr, png, raster, rmarkdown,
slippymath, testthat (>= 3.0.0)
ggplot2, knitr, png, rmarkdown, slippymath, testthat (>=
3.0.0), tidyterra
testthat, rmarkdown, knitr, DeclareDesign, covr
knitr, rmarkdown, ggplot2, ggrepel, magrittr, scales,
testthat, png,
parallel (>= 3.1.0), Rmpi (>= 0.6-6), fNonlinear,
nonlinearTseries, tuneR
mvbutils, sna, knitr, IDPmisc, amap, seriation, speaq,
clusterCrit, NbClust, R.utils, RColorBrewer, baseline, js,
jsonlite, exCon, mclust, gsubfn, lattice, pcaPP, pls, grid,
robustbase, MASS
mvbutils, sna, knitr, IDPmisc, amap, seriation, speaq,
clusterCrit, NbClust, R.utils, RColorBrewer, baseline, js,
jsonlite, exCon, mclust, gsubfn, lattice, pcaPP, pls, grid,
robustbase, MASS, signal
mvbutils, sna, knitr, IDPmisc, js, speaq, NbClust, lattice,
baseline, mclust, pls, clusterCrit, R.utils, RColorBrewer,
seriation, MASS, robustbase, grid, pcaPP, jsonlite, gsubfn,
amap, signal, rgl, readJDX
mvbutils, sna, knitr, IDPmisc, js, NbClust, lattice,
baseline, mclust, pls, clusterCrit, R.utils, RColorBrewer,
seriation, MASS, robustbase, grid, pcaPP, jsonlite, gsubfn,
amap, signal, rgl, readJDX, speaq
IDPmisc, knitr, js, NbClust, lattice, baseline, mclust, pls,
clusterCrit, R.utils, RColorBrewer, seriation, MASS,
robustbase, grid, pcaPP, jsonlite, gsubfn, signal, rgl, readJDX
(>= 0.3), speaq
IDPmisc, knitr, js, NbClust, lattice, baseline, mclust, pls,
clusterCrit, R.utils, RColorBrewer, seriation, MASS,
robustbase, grid, pcaPP, jsonlite, gsubfn, signal, rgl, readJDX
(>= 0.3), speaq, testthat
IDPmisc, knitr, js, NbClust, lattice, baseline, mclust, pls,
clusterCrit, R.utils, RColorBrewer, seriation, MASS,
robustbase, grid, pcaPP, jsonlite, gsubfn, amap, signal, rgl,
readJDX (>= 0.3), speaq
IDPmisc, knitr, js, NbClust, lattice, baseline, mclust, pls,
clusterCrit, R.utils, RColorBrewer, seriation, MASS,
robustbase, grid, pcaPP, jsonlite, gsubfn, signal, rgl, readJDX
(>= 0.3), speaq, tinytest, elasticnet, irlba, amap, rmarkdown,
pinp, chemometrics, kableExtra
IDPmisc, knitr, js, NbClust, lattice, baseline, mclust, pls,
clusterCrit, R.utils, RColorBrewer, seriation, MASS,
robustbase, grid, pcaPP, jsonlite, gsubfn, signal, rgl, readJDX
(>= 0.3), speaq, testthat, elasticnet, irlba, amap, rmarkdown,
pinp
IDPmisc, knitr, js, NbClust, lattice, baseline, mclust, pls,
clusterCrit, R.utils, RColorBrewer, seriation, MASS,
robustbase, grid, pcaPP, jsonlite, gsubfn, signal, rgl, speaq,
tinytest, elasticnet, irlba, amap, rmarkdown, pinp,
chemometrics, kableExtra
IDPmisc, knitr, js, NbClust, lattice, baseline, mclust, pls,
clusterCrit, R.utils, RColorBrewer, seriation, MASS,
robustbase, grid, pcaPP, jsonlite, gsubfn, signal, rgl, speaq,
tinytest, elasticnet, irlba, amap, rmarkdown, bookdown,
chemometrics, hyperSpec
IDPmisc, knitr, js, NbClust, lattice, baseline, mclust, pls,
clusterCrit, R.utils, RColorBrewer, seriation, MASS,
robustbase, grid, pcaPP, jsonlite, gsubfn, signal, rgl, speaq,
tinytest, elasticnet, irlba, amap, rmarkdown, bookdown,
chemometrics
IDPmisc, knitr, js, NbClust, lattice, baseline, mclust, pls,
clusterCrit, R.utils, RColorBrewer, seriation, MASS,
robustbase, grid, pcaPP, jsonlite, gsubfn, signal, rgl, speaq,
tinytest, elasticnet, irlba, amap, rmarkdown, bookdown,
chemometrics, httr, RCurl, mixOmics, hyperSpec, bootsPLS
IDPmisc, knitr, js, NbClust, lattice, baseline, mclust, pls,
clusterCrit, R.utils, RColorBrewer, seriation, MASS,
robustbase, grid, pcaPP, jsonlite, gsubfn, signal, speaq,
tinytest, elasticnet, irlba, amap, rmarkdown, bookdown,
chemometrics, httr, RCurl, mixOmics, hyperSpec, bootsPLS
IDPmisc, knitr, js, NbClust, lattice, baseline, mclust, pls,
clusterCrit, R.utils, RColorBrewer, seriation, MASS,
robustbase, grid, pcaPP, jsonlite, gsubfn, signal, speaq,
tinytest, elasticnet, irlba, amap, rmarkdown, bookdown,
chemometrics, hyperSpec
IDPmisc, knitr, js, NbClust, lattice, baseline, mclust, pls,
clusterCrit, R.utils, RColorBrewer, seriation, MASS, grid,
pcaPP, jsonlite, signal, speaq, tinytest, elasticnet, irlba,
rmarkdown, bookdown, chemometrics, hyperSpec, amap, robustbase,
gsubfn
knitr, tinytest, irlba, ThreeWay, multiway, parallel,
matrixStats, R.utils, mlrMBO, ParamHelpers, smoof, mlr, lhs,
RcppRoll, rmarkdown, pinp, robustbase
knitr, tinytest, irlba, ThreeWay, multiway, parallel,
matrixStats, R.utils, mlrMBO, ParamHelpers, smoof, mlr, lhs,
RcppRoll, rmarkdown, pinp, robustbase, bookdown
knitr, tinytest, irlba, ThreeWay, multiway, parallel,
matrixStats, R.utils, mlrMBO, ParamHelpers, smoof, mlr, lhs,
RcppRoll, rmarkdown, pinp, robustbase, bookdown, CMLS
knitr, tinytest, irlba, ThreeWay, multiway, parallel,
matrixStats, R.utils, mlrMBO, ParamHelpers, smoof, mlr, lhs,
RcppRoll, rmarkdown, robustbase, bookdown, CMLS
ChemoSpec (>= 5.0), ChemoSpec2D, testthat
ChemoSpec (>= 5.1), ChemoSpec2D (>= 0.3), testthat, tinytest,
robustbase, RColorBrewer, amap, irlba
ChemoSpec (>= 5.1), ChemoSpec2D (>= 0.3), tinytest,
robustbase, RColorBrewer, amap, irlba, ThreeWay, multiway
ChemoSpec (>= 5.1), ChemoSpec2D (>= 0.3), tinytest,
robustbase, RColorBrewer, amap, irlba, ThreeWay, multiway,
lattice
ChemoSpec (>= 5.1), ChemoSpec2D (>= 0.3), tinytest,
robustbase, RColorBrewer, amap, irlba, ThreeWay, multiway,
lattice, roxut
ChemoSpec (>= 6.0), ChemoSpec2D (>= 0.5), tinytest,
robustbase, RColorBrewer, amap, irlba, ThreeWay, multiway,
lattice, roxut, reshape2, patchwork
nnet, randomForest, ada, rrcov, sfsmisc, ipred, fastICA, rda,
TIMP, class, e1071, rpart, cluster, ALS, ptw, dtw, boot, leaps,
lars, elasticnet, subselect, signal, mclust,
ChemometricsWithRData (>= 0.1.4)
nnet, randomForest, ada, rrcov, sfsmisc, ipred, fastICA, rda,
TIMP, class, e1071, rpart, cluster, ALS, ptw, dtw, boot, leaps,
lars, elasticnet, subselect, signal, mclust
nnet, randomForest, ada, rrcov, sfsmisc, ipred, fastICA, rda,
TIMP, class, e1071, rpart, cluster, ALS, ptw, dtw, boot, leaps,
lars, elasticnet, subselect, kohonen, signal, mclust
bayesm, MASS, lattice, Matrix, testthat (>= 3.0.0)
foreach, iterators, parallel, doParallel, gridExtra
cluster, ggplot2, knitr, rmarkdown, testthat (>= 3.0.0),
graphics
psychotree, psychotools, qvcalc, knitr, rmarkdown, testthat
(>= 2.1.0)
knitr, PlackettLuce (>= 0.2-8), rmarkdown, testthat (>=
2.1.0)
knitr, rmarkdown, PlackettLuce, testthat (>= 2.1.0)
gosset, knitr, rmarkdown, PlackettLuce, testthat (>= 2.1.0)
gosset, knitr, rmarkdown, sf, PlackettLuce, testthat (>=
2.1.0)
lme4, nlme, car, magrittr, knitr, rmarkdown
lme4, nlme, car, magrittr, knitr, rmarkdown, survival
nlme, magrittr, knitr, rmarkdown, survival
knitr, rmarkdown, e1071, dbscan, dendextend, Seurat
knitr, rmarkdown, e1071, dbscan, dendextend, Seurat, readr,
patchwork
psych, ggplot2, knitr, rmarkdown, testthat (>= 2.1.0), tidyr,
Hmisc, tictoc, spelling, corrplot, covr
ggExtra, ggplot2, knitr, rmarkdown, testthat (>= 2.1.0),
tidyr, Hmisc, tictoc, spelling, corrplot, covr
ggExtra, rmarkdown, testthat (>= 2.1.0), Hmisc, tictoc,
spelling, corrplot, covr
OpenImageR, testthat, covr, knitr, rmarkdown
OpenImageR, FD, testthat, covr, knitr, rmarkdown
DT, kableExtra, knitr, rmarkdown, shinyalert, shinyFiles,
shinyjs, shinythemes, shinyWidgets, tidyverse, shinycssloaders
DT, shinyalert, shinyFiles, shinyjs, shinythemes,
shinyWidgets, tidyverse, shinycssloaders
graph, Rgraphviz, RUnit, knitr, highlight, RJSONIO, RCurl
Rgraphviz, RUnit, knitr, highlight, RJSONIO, RCurl, Rcpp
tibble, testthat (>= 3.0.0), ggplot2, RColorBrewer
testthat, devtools, roxygen2, covr, lintr
RandomFields, spam, scatterplot3d, fields, mapproj
pcalg, InvariantCausalPrediction, glmnet, backShift, CAM,
kernlab, mgcv, testthat
pcalg, InvariantCausalPrediction, glmnet, backShift, CAM,
kernlab, mgcv, bnlearn, testthat, huge, flare
pcalg, InvariantCausalPrediction, glmnet, backShift, CAM,
kernlab, mgcv, mboost, bnlearn, testthat, huge, flare
testthat (>= 2.1.0), knitr, rmarkdown, covr, tibble,
ggplot2movies, vdiffr, jsonlite
testthat (>= 2.1.0), knitr, rmarkdown, covr, tibble,
ggplot2movies, vdiffr, jsonlite, data.table
MASS, knitr, rmarkdown, ggplot2, mvtnorm
testthat (>= 3.0.0), knitr, rmarkdown, ggplot2, repr
knitr, rmarkdown, e1071, randomForest, scales, mlbench
knitr, rmarkdown, e1071, randomForest, scales, mlbench,
FeatureTerminatoR
ape, bookdown, knitr, phangorn, Quartet, rmarkdown,
TreeSearch (> 0.2.0), usethis
rjags, coda, knitr, devtools, rmarkdown, testthat (>= 3.0.0)
knitr, rmarkdown, lhs, mlegp, ggplot2, laGP, covr, testthat
covr, knitr, rmarkdown, testthat, rnaturalearthdata, maps
covr, countrycode, knitr, maps, magrittr, paleobioDB,
rmarkdown, rnaturalearthdata, testthat, viridis
countrycode, covr, knitr, maps, paleobioDB, rgbif, rmarkdown,
testthat
rmarkdown, knitr, data.table, fitbitViz, tmap, leaflet,
leafgl
testthat, knitr, loo, Rmisc, httr, bayesplot
clere(>= 1.1.2), spikeslab(>= 1.1.5), parcor(>= 0.2), missMDA
(>= 1.7.3), tuneR, knitr, rmarkdown
clere(>= 1.1.2), spikeslab(>= 1.1.5), parcor(>= 0.2), missMDA
(>= 1.7.3), tuneR, knitr, rmarkdown, Rmixmod(>= 2.0.1)
knitr, BiocStyle, corpcor, glasso, Biobase, roxygen2,
RColorBrewer, devtools, xtable
knitr, rmarkdown, BiocParallel, CRF, MASS, stats, matrixcalc,
mpmi
knitr, rmarkdown, BiocParallel, CRF, MASS, stats, matrixcalc,
mpmi, fitdistrplus, igraph
knitr, rmarkdown, BiocParallel, matrixcalc, mpmi,
fitdistrplus
ggplot2 , knitr , prettydoc , rmarkdown , roxygen2 , testthat
unittest, R.rsp, knitr, rmarkdown, lintr, testthat (>=
3.0.0), markdown
mlbench, caret, knitr, modeldata, dplyr (>= 0.7.4), rlang,
tidyrules
mlbench, knitr, modeldata, dplyr (>= 0.7.4), rlang,
tidyrules, rmarkdown
testthat, MASS, gnm, ggplot2, microbenchmark
testthat, MASS, gnm, ggplot2, microbenchmark, cmprsk
testthat, readr, MASS, gnm, ggplot2, microbenchmark, cmprsk
grDevices, knitr, rmarkdown, testthat (>= 3.0.2)
roxygen2 (>= 3.1.0), testthat,usethis,knitr,
WriteXLS,XLConnect,openxlsx,xlsx, officedown, Biobase, getPass
roxygen2 (>= 3.1.0), testthat,usethis,knitr, XLConnect, xlsx,
openxlsx
roxygen2 (>= 3.1.0), testthat,usethis,knitr,
WriteXLS,XLConnect,openxlsx,xlsx, officedown
leaps, oz, lme4, quantreg, knitr, boot, rpart, randomForest,
MASS, survival
leaps, oz, lme4, quantreg, knitr, boot, rpart, randomForest,
MASS, survival, mgcv, rmarkdown, bookdown
covr, testthat (>= 2.1.0), knitr, rmarkdown, gridExtra,
dplyr, ggplot2, ggtree, tidytree, tidyr, purrr, ape, phytools,
tibble
covr, testthat (>= 2.1.0), knitr, rmarkdown, gridExtra,
dplyr, ggplot2, ggtree (>= 3.0.0), tidytree, tidyr, purrr, ape,
phytools, tibble
gbm, randomForest, xgboost, testthat, dplyr
gbm, randomForest, xgboost, ALEPlot, breakDown, pdp,
factorMerger, ggpubr, testthat, dplyr
gbm, randomForest, xgboost, ALEPlot, ingredients, iBreakDown,
breakDown, pdp, factorMerger, ggpubr, testthat, dplyr, h2o,
reticulate
ALEPlot, breakDown, factorMerger, gbm, ggpubr, iBreakDown,
ingredients, pdp, randomForest, testthat
gbm, randomForest, xgboost, ALEPlot, ingredients, iBreakDown,
breakDown, pdp, factorMerger, ggpubr, testthat, dplyr
gower, ingredients, iBreakDown, ggpubr, ranger, testthat
gower, ranger, yardstick, testthat, methods
auditor, gbm, ggrepel, h2o, mljar, mlr, randomForest,
rmarkdown, testthat
auditor, ingredients, gbm, ggrepel, h2o, mljar, mlr, mlr3,
randomForest, rmarkdown, rpart, xgboost, testthat
auditor, ingredients, gbm, ggrepel, h2o, mlr, mlr3,
randomForest, rmarkdown, rpart, xgboost, testthat
auditor, ingredients, gbm, ggrepel, h2o, mlr, mlr3,
randomForest, rmarkdown, rpart, xgboost, testthat, covr
auditor, ingredients, gbm, ggrepel, h2o, iml, lime,
localModel, mlr, mlr3, randomForest, recipes, rmarkdown, rpart,
xgboost, testthat, tidymodels
auditor, gbm, ggrepel, h2o, iml, ingredients, lime,
localModel, mlr, mlr3, ranger, recipes, rmarkdown, rpart,
stacks, xgboost, testthat, tidymodels
carData, knitr, markdown, rmarkdown, rstan
testthat, RSQLite, knitr, rmarkdown, covr
covr, hms, knitr, magrittr, rprojroot, rmarkdown, RSQLite (>=
1.1-2), testthat, xml2
blob, covr, hms, knitr, magrittr, rprojroot, rmarkdown,
RSQLite (>= 1.1-2), testthat, xml2
blob, covr, hms, knitr, magrittr, rmarkdown, rprojroot,
RSQLite (>= 1.1-2), testthat, xml2
blob, covr, dbplyr, dplyr, glue, hms, knitr, magrittr,
rmarkdown, rprojroot, RMariaDB, RSQLite (>= 1.1-2), testthat,
xml2
blob, covr, DBItest, dbplyr, downlit, dplyr, glue, hms,
knitr, magrittr, RMariaDB, rmarkdown, rprojroot, RSQLite (>=
1.1-2), testthat, xml2
debugme, devtools, knitr, lintr, rmarkdown, RSQLite
clipr, dblog (>= 0.0.0.9008), debugme, devtools, knitr,
lintr, rmarkdown, RSQLite
testthat, knitr, rmarkdown, devtools, lattice, png
INLA, pscl, RColorBrewer, gridExtra, latticeExtra
BB, Rcgmin, Rvmmin, minqa, numDeriv, ucminf
knitr, labelled, rmarkdown, spelling, testthat (>= 3.0.0),
tibble
foreach, iterators, colorspace, lattice, parallelly
knitr, impute, gplots, fdrtool, testthat, ggplot2, plotrix,
GOstats, HGNChelper, org.Hs.eg.db, AnnotationDbi, abind,
MEGENA, Matrix, doMC, igraph, cowplot, stats, utils
conflicted, dplyr, glue, knitr, rmarkdown, testthat, biomaRt,
edgeR
conflicted, dplyr, glue, knitr, rmarkdown, testthat, biomaRt,
edgeR, GenomicRanges
biomaRt, conflicted, dplyr, edgeR, GenomicRanges, glue,
knitr, rmarkdown, testthat
canvasXpress, conflicted, glue, ggplot2, knitr, rmarkdown,
testthat, biomaRt
canvasXpress, conflicted, glue, ggplot2, IHW, knitr,
RNASeqPower, rmarkdown, statmod, testthat, biomaRt, zFPKM
biomaRt, canvasXpress, conflicted, edgeR, glue, ggplot2, IHW,
limma, knitr, qvalue, RNASeqPower, rmarkdown, statmod, sva,
testthat, zFPKM
RColorBrewer, knitr, rmarkdown, data.table, ggplot2
knitr, testthat, KernSmooth, spaMM (>= 3.2.0)
knitr, testthat, rmarkdown, KernSmooth, spaMM (>= 3.2.0)
knitr, testthat, rmarkdown, KernSmooth, sfsmisc, MASS, mgcv,
glmmTMB (>= 1.0.1), spaMM (>= 3.2.0), GLMMadaptive
knitr, testthat, rmarkdown, KernSmooth, sfsmisc, MASS, mgcv,
spaMM (>= 3.2.0), GLMMadaptive, phyr
knitr, testthat, rmarkdown, KernSmooth, sfsmisc, MASS, mgcv,
spaMM (>= 3.2.0), GLMMadaptive, glmmTMB (>= 1.0.1)
knitr, testthat, rmarkdown, KernSmooth, sfsmisc, MASS, mgcv,
mgcViz (>= 0.1.9), spaMM (>= 3.2.0), GLMMadaptive, glmmTMB (>=
1.1.2.3)
DBI (>= 1.1.0), lintr, RJDBC, RPostgres, testthat
boot, broom, crayon, devtools, DT, fmsb, ggrepel, gridExtra,
kableExtra, knitr, MASS, mvtnorm, openxlsx, purrr, readxl,
rfishbase, rmarkdown, shiny, testthat, tidyr
dm, knitr, rmarkdown, conflicted, purrr, readr, readxl,
rvest, sqldf, stringr, tidyr, tibble, testthat, usethis, xml2
dm, purrr, knitr, rmarkdown, conflicted, readr, rvest, sqldf,
tidyr, tibble, testthat, usethis, xml2
purrr, knitr, rmarkdown, conflicted, readr, rvest, sqldf,
tidyr, testthat, usethis, xml2
knitr, rmarkdown, testthat (>= 3.0.0), HDShOP
Rmpfr, Matrix, mgcv, scatterplot3d, akima
Rmpfr, Matrix, MASS, mgcv, scatterplot3d, akima
Rmpfr, DPQmpfr, gmp, Matrix, MASS, mgcv, scatterplot3d, akima
Rmpfr, DPQmpfr (>= 0.3-1), gmp, Matrix, MASS, mgcv,
scatterplot3d, akima
Rmpfr, DPQmpfr (>= 0.3-1), gmp, MASS, mgcv, scatterplot3d,
interp
knitr, rmarkdown, spelling, testthat, covr
parallel, shiny, shinyBS, shinyjs, testthat
parallel, shiny, shinyBS, shinyjs, testthat, knitr, rmarkdown
covr, knitr (>= 1.15), pkgdown, rmarkdown (>= 1.10), testthat
covr, devtools, knitr (>= 1.15), pkgdown, rmarkdown (>=
1.10), roxygen2, testthat
covr, devtools, knitr, pkgdown, rmarkdown, roxygen2, testthat
covr, knitr, pkgdown, rmarkdown (>= 1.10), testthat
covr, devtools, emoji, knitr, pkgdown, rmarkdown, roxygen2,
testthat
dsBaseClient (>= 6.0), knitr, mockery, testthat (>= 2.1.0),
tibble, rmarkdown, metafor
akima, cowplot, ggplot2, gstat, knitr, rmarkdown, testthat
(>= 3.0.0)
cowplot, ggplot2, gstat, interp, knitr, rmarkdown, testthat
(>= 3.0.0)
knitr, rmarkdown, tibble, tidyr, ggplot2, dplyr, magrittr,
testthat, wordcloud2, forcats, viridis
testthat, parallel, pbapply, knitr, rmarkdown
knitr (>= 1.8), rmarkdown, shiny (>= 1.1.0)
knitr (>= 1.8), rmarkdown, shiny (>= 1.2.0)
knitr (>= 1.8), rmarkdown, shiny (>= 1.2.0), testit
knitr (>= 1.8), rmarkdown, shiny (>= 1.6), bslib, testit
knitr (>= 1.8), rmarkdown, shiny (>= 1.6), bslib, future,
testit
knitr, rmarkdown, lattice, latticeExtra, widgetframe, tidyr,
RColorBrewer
dygraphs, fasttime, knitr, magrittr, RColorBrewer, rmarkdown,
testthat, xts
covr, dygraphs, fasttime, knitr, magrittr, RColorBrewer,
rmarkdown, testthat
covr, dygraphs, fasttime, knitr, magrittr, RColorBrewer,
rmarkdown, tinytest
covr, dygraphs, fasttime, knitr, magrittr, RColorBrewer,
rmarkdown, runner (>= 0.3.5), tinytest
dygraphs, fasttime, knitr, magrittr, RColorBrewer, RcppCCTZ,
rmarkdown, runner (>= 0.3.5), tinytest, units
knitr, rmarkdown, covr, testthat (>= 2.1.0)
snow, multicore, MASS, rpart, ipred, e1071, randomForest,
mboost
MASS, rpart, ipred, e1071, randomForest, mboost, TH.data
testthat, covr, knitr, jsonlite, nycflights13
DBI, charlatan, stringr, stringi, rmarkdown, knitr, covr,
lintr, httr, mockery, testthat (>= 3.0.0), rcmdcheck
testthat, covr, knitr, pryr, rmarkdown, DT
plotly, plyr, akima, ggmap, reshape2, plotrix, rworldmap,
rgl, ABCanalysis, choroplethr, gplots, dplyr, R6, sp
plotly, plyr, akima, ggmap, reshape2, plotrix, rworldmap,
rgl, ABCanalysis, choroplethr, gplots, dplyr, R6, parallelDist,
knitr (>= 1.12), rmarkdown (>= 0.9), vioplot
pracma, plyr, MBA, ggmap, reshape2, plotrix, rworldmap, rgl,
ABCanalysis, choroplethr, dplyr, R6, parallelDist, knitr (>=
1.12), rmarkdown (>= 0.9), vioplot, ggExtra, plotly,
htmlwidgets, diptest, moments, signal, DatabionicSwarm, modes
pracma, plyr, MBA, ggmap, reshape2, plotrix, rworldmap, rgl,
ABCanalysis, choroplethr, dplyr, R6, parallelDist, knitr (>=
1.12), rmarkdown (>= 0.9), vioplot, ggExtra, plotly,
htmlwidgets, diptest, moments, signal, DatabionicSwarm, ggrepel
plyr, akima, ggmap, reshape2, plotrix, rworldmap, rgl,
ABCanalysis, choroplethr, gplots, dplyr, R6, parallelDist,
knitr (>= 1.12), rmarkdown (>= 0.9), rglwidget, vioplot,
ggExtra, plotly, htmlwidgets
plyr, akima, ggmap, reshape2, plotrix, rworldmap, rgl,
ABCanalysis, choroplethr, gplots, dplyr, R6, parallelDist,
knitr (>= 1.12), rmarkdown (>= 0.9), vioplot, ggExtra, plotly,
htmlwidgets, diptest, moments, signal, DatabionicSwarm
plyr, akima, ggmap, reshape2, plotrix, rworldmap, rgl,
ABCanalysis, choroplethr, gplots, dplyr, R6, parallelDist,
knitr (>= 1.12), rmarkdown (>= 0.9), vioplot, ggExtra, plotly,
htmlwidgets, diptest, moments, signal, DatabionicSwarm, rowr
pracma, plyr, akima, ggmap, reshape2, plotrix, rworldmap,
rgl, ABCanalysis, choroplethr, gplots, dplyr, R6, parallelDist,
knitr (>= 1.12), rmarkdown (>= 0.9), vioplot, ggExtra, plotly,
htmlwidgets, diptest, moments, signal, DatabionicSwarm, rowr,
AdaptGauss
pracma, plyr, MBA, ggmap, reshape2, plotrix, rworldmap, rgl,
ABCanalysis, choroplethr, gplots, dplyr, R6, parallelDist,
knitr (>= 1.12), rmarkdown (>= 0.9), vioplot, ggExtra, plotly,
htmlwidgets, diptest, moments, signal, DatabionicSwarm, rowr
plyr, MBA, ggmap, plotrix, rworldmap, rgl, ABCanalysis,
choroplethr, dplyr, R6, parallelDist, knitr (>= 1.12),
rmarkdown (>= 0.9), vioplot, ggExtra, plotly, htmlwidgets,
diptest, moments, signal, DatabionicSwarm, ggrepel
plyr, MBA, ggmap, plotrix, rworldmap, rgl, ABCanalysis,
choroplethr, dplyr, R6, parallelDist, knitr (>= 1.12),
rmarkdown (>= 0.9), vioplot, ggExtra, plotly, htmlwidgets,
diptest, moments, signal, DatabionicSwarm, ggrepel, MASS
aws.s3, uuid, R.utils, testthat, DBItest, knitr, rmarkdown,
aws.s3, uuid, R.utils, testthat, DBItest, knitr, rmarkdown,
RSQLite
aws.s3, uuid, R.utils, testthat, DBItest, knitr, rmarkdown,
RSQLite, ssh, Andromeda, dplyr
aws.s3, R.utils, withr, testthat, DBItest, knitr, rmarkdown,
RSQLite, ssh, Andromeda, dplyr
aws.s3, R.utils, withr, testthat, DBItest, knitr, rmarkdown,
RSQLite, ssh, Andromeda (>= 0.5.0), dplyr
aws.s3, R.utils, withr, testthat, DBItest, knitr, rmarkdown,
RSQLite, ssh, Andromeda (>= 0.6.0), dplyr
plotrix, geometry, sp, spdep, AdaptGauss, ABCanalysis,
parallel, matrixStats, rgl, png, ProjectionBasedClustering
DataVisualizations, plotrix, geometry, sp, spdep, AdaptGauss,
ABCanalysis, parallel, matrixStats, rgl, png,
ProjectionBasedClustering
DataVisualizations, plotrix, geometry, sp, spdep, AdaptGauss,
ABCanalysis, parallel, matrixStats, rgl, png,
ProjectionBasedClustering, parallelDist
DataVisualizations, knitr (>= 1.12), rmarkdown (>=
0.9),rglwidget, plotrix, geometry, sp, spdep, AdaptGauss,
ABCanalysis, parallel, matrixStats, rgl, png,
ProjectionBasedClustering, parallelDist, pracma
DataVisualizations, knitr (>= 1.12), rmarkdown (>= 0.9),
plotrix, geometry, sp, spdep, AdaptGauss, ABCanalysis,
parallel, matrixStats, rgl, png, ProjectionBasedClustering,
parallelDist, pracma
DataVisualizations, knitr (>= 1.12), rmarkdown (>= 0.9),
plotrix, geometry, sp, spdep, AdaptGauss, ABCanalysis,
parallel, matrixStats, rgl, png, ProjectionBasedClustering,
parallelDist, pracma, dendextend, rowr
DataVisualizations, knitr (>= 1.12), rmarkdown (>= 0.9),
plotrix, geometry, sp, spdep, AdaptGauss, ABCanalysis,
parallel, matrixStats, rgl, png, ProjectionBasedClustering,
parallelDist, pracma, dendextend
DataVisualizations, knitr (>= 1.12), rmarkdown (>= 0.9),
plotrix, geometry, sp, spdep, AdaptGauss, ABCanalysis,
parallel, rgl, png, ProjectionBasedClustering, parallelDist,
pracma, dendextend
knitr (>= 1.8), knitcitations, rmarkdown, formatR, extrafont,
testthat, svglite, fields, VGAM
knitr (>= 1.8), knitcitations, rmarkdown, formatR, extrafont,
testthat, svglite, VGAM
testthat, knitr, rmarkdown, AER, dplyr, data.table, ggplot2,
future.apply, broom, MASS, Matching, betareg, biglm, gam, lfe,
sf, reshape2
testthat, knitr, rmarkdown, AER, dplyr, data.table, ggplot2,
future.apply, broom, MASS, Matching, betareg, biglm, gam, lfe,
sf, reshape2, DesignLibrary
testthat, knitr, rmarkdown, AER, diffobj, dplyr, data.table,
ggplot2, future.apply, broom, MASS, Matching, betareg, biglm,
gam, lfe, sf, reshape2, DesignLibrary
testthat, knitr, rmarkdown, AER, diffobj, dplyr, data.table,
tibble, ggplot2, future.apply, broom, MASS, Matching, betareg,
biglm, gam, lfe, sf, reshape2, DesignLibrary
testthat, knitr, rmarkdown, AER, diffobj, dplyr, data.table,
tibble, ggplot2, future.apply, broom, MASS, Matching, betareg,
biglm, gam, lfe, sf, reshape2, DesignLibrary, coin
testthat, knitr, rmarkdown, AER, diffobj, dplyr, data.table,
tibble, ggplot2, future.apply, broom, MASS, Matching, betareg,
biglm, gam, sf, reshape2, DesignLibrary, coin, margins
testthat, knitr, rmarkdown, AER, diffobj, dplyr, data.table,
tibble, ggplot2, future.apply, broom, MASS, Matching, betareg,
biglm, gam, sf, reshape2, DesignLibrary, coin, margins, psych
mvtnorm, rgl, sn, robustbase, dplyr, RcppArmadillo
mvtnorm, rgl, sn, robustbase, dplyr, RcppArmadillo, xts,
covr, testthat, fda
mvtnorm, rgl, sn, robustbase, dplyr, RcppArmadillo, xts,
covr, testthat, fda, lintr
mvtnorm, rgl, sn, robustbase, dplyr, RcppArmadillo, xts,
covr, testthat, fda, lintr, roxygen2, pkgbuild
testthat, covr, knitr, rmarkdown, tidyverse, here, shiny,
Exact
testthat, covr, tidyverse, here, shiny, Exact
knitr, testthat, systemfit, ggplot2, broom, rmarkdown
DiagrammeRsvg, knitr, magrittr, rsvg, testthat
covr, DiagrammeRsvg, rsvg, knitr, testthat
covr, DiagrammeRsvg, rsvg, knitr, testthat, rmarkdown
rgenoud (>= 5.8-2.0), foreach, doParallel, testthat, numDeriv
Ckmeans.1d.dp, FunChisq, knitr, rmarkdown, testthat
Ckmeans.1d.dp, FunChisq, knitr, rmarkdown, testthat,
DiffusionRgqd, DiffusionRjgqd, knitr, coda, Quandl, R.rsp
DiffusionRgqd, knitr, coda, Quandl, R.rsp
knitr, rmarkdown, testthat, withr, doParallel, EdSurvey
knitr, rmarkdown, testthat, withr, doParallel, parallel,
EdSurvey
knitr, dplyr, ggplot2, reshape2, scales, testthat, rmarkdown
knitr, dplyr, ggplot2, reshape2, scales, testthat
rgl, knitr, rmarkdown, formatR, testthat
knitr, rmarkdown, ggplot2, forcats, scales
knitr, rmarkdown, markdown, prettydoc, ggplot2, forcats,
scales, stringr
knitr, rmarkdown, markdown, prettydoc, ggplot2, forcats,
scales, tinytest
covr, progress, parallel, doParallel, foreach, testthat
covr, progress, parallel, doParallel, doRNG, foreach,
activity, testthat
covr, progress, parallel, doParallel, doRNG, foreach,
activity, testthat, optimx, readxl
learnr, knitr, rmarkdown, spelling, testthat
markdown, knitr, rmarkdown, testthat (>= 3.0.0)
covr, DT, lintr, testthat, spelling, rhub, mockery
covr, DT, lintr, testthat, spelling, rhub
numDeriv, Rsolnp, quadprog, parallel, multcomp
numDeriv, Rsolnp, quadprog, parallel, multcomp, ggplot2,
knitr, rmarkdown, MASS, testthat
knitr, rmarkdown, testthat, patrick, mlr3learners (>= 0.3.0),
paradox (>= 0.4.0), dplyr, glmnet, lgr, ranger, sandwich, AER,
rpart
knitr, rmarkdown, testthat, patrick, mlr3learners (>= 0.3.0),
paradox (>= 0.4.0), dplyr, glmnet, lgr, ranger, sandwich, AER,
rpart, bbotk
knitr, rmarkdown, testthat, covr, patrick, paradox (>=
0.4.0), dplyr, glmnet, lgr, ranger, sandwich, AER, rpart, bbotk
knitr, rmarkdown, testthat, covr, patrick (>= 0.1.0), paradox
(>= 0.4.0), dplyr, glmnet, lgr, ranger, sandwich, AER, rpart,
bbotk
knitr, rmarkdown, testthat, covr, patrick (>= 0.1.0), paradox
(>= 0.4.0), dplyr, glmnet, lgr, ranger, sandwich, AER, rpart,
bbotk, mlr3pipelines
fda, ggplot2, knitr, parallel, rmarkdown, testthat
knitr, rmarkdown, devtools, roxygen2, irlba
testthat, fmsb, knitr, magrittr, highcharter, rmarkdown (>=
1.8), igraph (>= 1.1.2)
testthat, knitr, ranger, glmnet, randomForest, rpart,
xgboost, stats, graphics, tidyr, MASS
knitr, rmarkdown, testthat, Matrix, covr, slam
DBI, standartox, testthat (>= 3.0.0), webchem
knitr, rmarkdown, stringi, testthat (>= 3.0.0)
knitr, readr, vcr, rmarkdown, roxygen2, testthat
knitr, ggplot2, RCurl, fields, gridExtra, animation
knitr, rmarkdown, markdown, ggplot2, RCurl, fields,
gridExtra, animation
knitr, rmarkdown, kableExtra, psych, psychTools, ggpubr,
ggplot2, tidyselect, mvtnorm (>= 1.0.8), corpcor (>= 1.6.9),
plyr (>= 1.8.4), matrixcalc (>= 1.0-3), pbapply, OpenMx, wTO,
MASS, fdrtool, fitdistrplus
knitr, rmarkdown, markdown, kableExtra, psych, psychTools,
ggpubr, ggplot2, tidyselect, corpcor (>= 1.6.9), plyr (>=
1.8.4), matrixcalc (>= 1.0-3), pbapply, OpenMx, wTO, MASS,
fitdistrplus, primes, purrr, shiny, shinyjs, shinyalert,
shinyBS, R.matlab, foreign, readxl, gridExtra, rstudioapi,
RColorBrewer, infutil
knitr, rmarkdown, markdown, kableExtra, psych, psychTools,
tidyselect, corpcor (>= 1.6.9), plyr (>= 1.8.4), matrixcalc (>=
1.0-3), pbapply, OpenMx, MASS, primes, purrr, shiny, shinyjs,
shinyalert, shinyBS, R.matlab, foreign, readxl, gridExtra,
rstudioapi, RColorBrewer, infutil, mirt
psych, psychTools, GPArotation, sna, markdown, knitr,
rmarkdown, gridExtra, rstudioapi, RColorBrewer
GPArotation, gridExtra, knitr, markdown, psych, psychTools,
pwr, RColorBrewer, rmarkdown, rstudioapi, sna
xtable, knitr, rmarkdown, extrafont, testthat, rkt
EGRETci, xtable, knitr, rmarkdown, extrafont, testthat, rkt,
doParallel, parallel
EGRETci, knitr, rmarkdown, extrafont, testthat, rkt,
doParallel, parallel, pkgdown, png, dplyr, zyp, lubridate, covr
knitr, testthat, foreach, doParallel, iterators, rmarkdown
knitr, testthat, doParallel, iterators, rmarkdown
knitr, testthat, doParallel, iterators, rmarkdown, pkgdown,
covr
glmnet, logistf, medExtractR, knitr, rmarkdown, ggplot2
glmnet, logistf, medExtractR, knitr, rmarkdown, ggplot2,
formula.tools
glmnet, logistf, medExtractR, knitr, rmarkdown, ggplot2,
markdown
glmnet, logistf, medExtractR (>= 0.4.1), knitr, rmarkdown,
ggplot2, markdown
knitr, rmarkdown, devtools, BiocStyle, dbscan
knitr, rmarkdown, devtools, BiocStyle, dbscan, webshot
knitr, rmarkdown, markdown, testthat (>= 3.0.0)
hgu133plus2.db, lumi, vsn, GOstats, GO.db
hgu133plus2.db, lumi, GOstats, Category, vsn,GO.db,
BiocGenerics, GSEABase
testthat, knitr, rmarkdown, listviewer, covr
knitr, taxize, tibble, testthat, covr, EML, units,
htmlwidgets, shiny, shinyjs, spelling
knitr, taxadb, tibble, testthat, covr, EML, units,
htmlwidgets, shiny, shinyjs, spelling
testthat, hypervolume, leaflet, mgcv, ecospat, randomForest,
ranger, caret, CalibratR, ape, ResourceSelection, ppmlasso,
fields, reshape2, vip, pdp, fastshap, viridis, progress
testthat, hypervolume, leaflet, mgcv, ecospat, randomForest,
ranger, caret, CalibratR, ape, ResourceSelection, fields,
reshape2, vip, pdp, fastshap, viridis, progress
testthat, hypervolume, leaflet, mgcv, ecospat (>= 3.2.1),
randomForest, ranger, caret, CalibratR, ape, ResourceSelection,
fields, reshape2, vip, pdp, fastshap, viridis, progress
testthat, hypervolume, leaflet, mgcv, ecospat, randomForest,
ranger, caret, CalibratR, ape, ResourceSelection, ppmlasso,
fields, reshape2
knitr, rmarkdown, spocc, maptools, rgeos
rJava (>= 0.5-0), parallel, knitr, rmarkdown, spocc,
maptools, rgeos, sp
rJava (>= 0.5-0), knitr, rmarkdown, spocc, RColorBrewer,
rasterVis, sf, blockCV, devtools, ecospat, rangeModelMetadata,
tibble, latticeExtra
rJava (>= 0.5-0), knitr, rmarkdown, spocc, RColorBrewer,
rasterVis, sf, blockCV, devtools, tibble, latticeExtra
rmarkdown, knitr, rJava (>= 0.5-0), spocc, RColorBrewer,
rasterVis, sf, blockCV, devtools, tibble, latticeExtra, ecospat
Rcmdr, gWidgets (>= 0.0-45), gWidgetstcltk (>= 0.0-44)
knitr, devtools, roxygen2, markdown, rstudioapi (>= 0.11),
testthat (>= 2.3.2), rsvg, gdtools
knitr, devtools, roxygen2, markdown, rstudioapi (>= 0.11),
testthat (>= 2.3.2)
knitr, devtools, roxygen2, markdown, rstudioapi (>= 0.11),
remotes, testthat (>= 2.3.2)
knitr, markdown, rmarkdown, spelling, testthat (>= 3.0.0)
knitr, rmarkdown, mlbench, doParallel, parallel
knitr, rmarkdown, mlbench, doParallel, parallel, dplyr,
yardstick, rsample
car, systemfit, sem, lmtest, sandwich, gdata
car, systemfit, sem, lmtest, sandwich, gdata, RCurl, XML, tis
car, systemfit, sem, lmtest, sandwich, gdata, RCurl, XML,
tis, knitr
car, systemfit, sem, lmtest, sandwich, gdata, RCurl, XML,
tis, Ecdat, fda
BMA, car, DescTools, Ecdat, maps, grid, gridBase, pryr
BMA, car, DescTools, Ecdat, maps, grid, gridBase, pryr, knitr
BMA, car, DescTools, Ecdat, maps, grid, gridBase, pryr,
knitr, rmarkdown, invgamma, ipumsr
car, DescTools, Ecdat, maps, grid, gridBase, pryr, knitr,
rmarkdown, invgamma, ipumsr, lubridate, bayesplot, bssm,
ggplot2, tibble
car, DescTools, Ecdat, maps, grid, gridBase, pryr, knitr,
rmarkdown, invgamma, ipumsr, lubridate, bayesplot, bssm,
ggplot2, tibble, kableExtra, openxlsx, fitdistrplus, purrr,
markdown
car, DescTools, Ecdat, maps, grid, gridBase, pryr, knitr,
rmarkdown, invgamma, ipumsr, lubridate, bayesplot, bssm,
ggplot2, tibble, kableExtra, openxlsx, fitdistrplus, purrr,
markdown, EnvStats, drc, zoo, prodlim, plyr, TRAMPR, raster,
readxl
knitr, rmarkdown, devtools, testthat (>= 3.0.0)
rmarkdown, knitr, testthat (>= 3.0.0), mgcv
adegenet, testthat, covr, vegan, hierfstat
vegan, shape, Rarity, splancs, plotrix, FD, picante
vegan, shape, Rarity, splancs, plotrix, FD, picante, sp,
geoR, mgcv, raster, alphahull, sf, methods
testthat (>= 2.1.0), knitr, rmarkdown, bookdown
dplyr, knitr, testthat, withr, RColorBrewer
dplyr, knitr, testthat, withr, rmarkdown, RColorBrewer
dplyr, knitr, testthat, withr, rmarkdown, RColorBrewer,
doParallel, parallel
gam, splines, MASS, class, mclust, leaps, mda, lasso2,
lars, boot
gam, splines, MASS, class, mclust02, leaps, mda, lasso2,
lars, boot
gam, splines, MASS, class, mclust, leaps, mda, lasso2, lars, boot
gam, splines, MASS, class, leaps, mda, lasso2, lars, boot,
prim, earth
testthat (>= 2.1.0), knitr, aniDom, rmarkdown
rmarkdown, bookdown, xtable, knitr, testthat (>= 3.0.0)
ggplot2, Matrix, igraph, Rtsne, umap, uwot, knitr, rmarkdown
testthat (>= 2.1.0), covr, osmar, rgdal, eixport
testthat (>= 2.1.0), covr, osmar, rgdal, eixport, lwgeom
testthat (>= 2.1.0), covr, osmar, RCurl, eixport, lwgeom
testthat (>= 2.1.0), covr, osmar, RCurl, eixport, lwgeom,
rgdal
testthat (>= 2.1.0), covr, osmar, RCurl, lwgeom, rgdal
knitr, markdown, rmarkdown, testthat, Cyclops, survival,
Sequential
lattice, qcc, sp, boot, tinytest, covr, Hmisc
splines, nlme, survival, mstate, etm, MASS
splines, nlme, survival, mstate, etm, MASS, cmprsk
mstate, nlme, lme4, demography, popEpi, tidyr
testthat, utils, vdiffr, covr, knitr, rmarkdown
knitr, ggplot2, grid, dplyr, testthat (>= 3.0.0), rmarkdown
knitr, ndtv (>= 0.7), rmarkdown, shiny, testthat
covr, knitr, ndtv, rmarkdown, shiny, testthat
knitr, ndtv, rmarkdown, shiny, testthat, tidyr
countrycode, dplyr, EpiSoon, forecastHybrid, here,
kableExtra, knitr, magrittr, rmarkdown, rnaturalearth,
spelling, tidyr,
countrycode, dplyr, EpiSoon, forecastHybrid, here,
kableExtra, knitr, magrittr, rmarkdown, rnaturalearth,
rstantools, spelling, tidyr, testthat
countrycode, dplyr, EpiSoon, forecastHybrid, here,
kableExtra, knitr, magrittr, rmarkdown, rnaturalearth,
rstantools, spelling, tidyr, testthat, covr
gamlss.dist, knitr, rmarkdown, AdequacyModel, readr, covr,
testthat (>= 3.0.0), vdiffr, spelling
gapminder, rmarkdown, htmltools, knitr, devtools, tidyquant,
wbstats
gapminder, rmarkdown, htmltools, knitr, devtools
BiocManager, rgdal, EBImage, knitr, rmarkdown
knitr, qpdf, testthat (>= 3.0.0), rmarkdown
ggplot2, knitr, PerformanceAnalytics, stats, SuppDists,
truncdist, VGAM, xtable
ggplot2, knitr, PerformanceAnalytics, stats, SuppDists,
truncdist, VGAM, xtable, graphics, utils, rmarkdown
corpcor, mvnmle, polycor, nFactors, Rgraphviz, mvnormtest, energy, jit, GPArotation
corpcor, mvnmle, polycor, nFactors, Rgraphviz, mvnormtest,
energy, GPArotation, sem, MASS, psych
corpcor, mvnmle, polycor, nFactors, Rgraphviz, mvnormtest,
energy, jit, GPArotation
corpcor, mvnmle, polycor, nFactors, Rgraphviz, mvnormtest,
energy, jit, GPArotation, sem, MASS, psych
rmarkdown, knitr, ggplot2, MASS, testthat (>= 3.0.0)
DataVisualizations, kernlab, cclust, vegan, dbscan, kohonen,
MCL, ADPclust, cluster, DatabionicSwarm, orclus, subspace,
flexclust, ABCanalysis, apcluster, pracma,EMCluster,
pdfCluster, parallelDist, plotly, ProjectionBasedClustering,
GeneralizedUmatrix, mstknnclust, densityClust, parallel,
energy, R.utils, tclust
kernlab, cclust, vegan, dbscan, kohonen, MCL, ADPclust,
cluster, DatabionicSwarm, orclus, subspace, flexclust,
ABCanalysis, apcluster, pracma,EMCluster, pdfCluster,
parallelDist, plotly, ProjectionBasedClustering,
GeneralizedUmatrix, mstknnclust, densityClust, parallel,
energy, R.utils, tclust, Spectrum, genie, protoclust,
fastcluster, clusterability, signal, reshape2
kernlab, cclust, dbscan, kohonen, MCL, ADPclust, cluster,
DatabionicSwarm, orclus, subspace, flexclust, ABCanalysis,
apcluster, pracma,EMCluster, pdfCluster, parallelDist, plotly,
ProjectionBasedClustering, GeneralizedUmatrix, mstknnclust,
densityClust, parallel, energy, R.utils, tclust, Spectrum,
genie, protoclust, fastcluster, clusterability, signal,
reshape2, PPCI, clustrd, MASS, rgl
kernlab, cclust, dbscan, kohonen, MCL, ADPclust, cluster,
DatabionicSwarm, orclus, subspace, flexclust, ABCanalysis,
apcluster, pracma,EMCluster, pdfCluster, parallelDist, plotly,
ProjectionBasedClustering, GeneralizedUmatrix, mstknnclust,
densityClust, parallel, energy, R.utils, tclust, Spectrum,
genie, protoclust, fastcluster, clusterability, signal,
reshape2, PPCI, clustrd, smacof, rgl,prclust, CEC, dendextend,
moments,prabclus, knitr, rmarkdown
kernlab, cclust, dbscan, kohonen, MCL, ADPclust, cluster,
DatabionicSwarm, orclus, subspace, flexclust, ABCanalysis,
apcluster, pracma,EMCluster, pdfCluster, parallelDist, plotly,
ProjectionBasedClustering, GeneralizedUmatrix, mstknnclust,
densityClust, parallel, energy, R.utils, tclust, Spectrum,
genie, protoclust, fastcluster, clusterability, signal,
reshape2, PPCI, clustrd, smacof, rgl,prclust, dendextend,
moments,prabclus, VarSelLCM, sparcl, mixtools, HDclassif,
clustvarsel, clusterSim, knitr, rmarkdown
kernlab, cclust, dbscan, kohonen, MCL, ADPclust, cluster,
DatabionicSwarm, orclus, subspace, flexclust, ABCanalysis,
apcluster, pracma,EMCluster, pdfCluster, parallelDist, plotly,
ProjectionBasedClustering, GeneralizedUmatrix, mstknnclust,
densityClust, parallel, energy, R.utils, tclust, Spectrum,
genie, protoclust, fastcluster, clusterability, signal,
reshape2, PPCI, clustrd, smacof, rgl,prclust, dendextend,
moments,prabclus, VarSelLCM, sparcl, mixtools, HDclassif,
clustvarsel, yardstick, knitr, rmarkdown, igraph, leiden,
clusterSim, NetworkToolbox
fda, fields, ggplot2, maps, mapdata, knitr, refund
fda, fields, ggplot2, maps, mapdata, knitr, refund, testthat
knitr, rmarkdown, dplyr, viridis, ggplot2, tidyr
knitr, rmarkdown, covr, pkgdown, testthat (>= 3.0.0)
knitr, rmarkdown, ggplot2, ggpubr, e1071
knitr, mice, rmarkdown, testthat, xgboost
nnet, knitr, mice, rmarkdown, testthat, xgboost
ggplot2, gridExtra, knitr, RColorBrewer, rmarkdown, testthat
(>= 3.0.0)
devtools, kableExtra, knitr, rmarkdown, testthat
class, cvTools, glmnet, speedglm, gplots, RColorBrewer, nlme,
rpart
covr, gstat, INLA, knitr, mapproj, parallel, rgeos, spdep,
splancs, testthat, verification
covr, dggrids, gstat, INLA, knitr, mapproj, parallel, rgeos,
spdep, splancs, testthat, verification
covr, dggrids, gstat, INLA, knitr, mapproj, parallel, rgeos,
rgdal, spdep, splancs, testthat, verification
car, dplyr, dunn.test, fishmethods, FSAdata, gdata, gplots,
Hmisc, knitr, lmtest, marked, nlstools, Rcapture, relax,
sciplot, testthat
dunn.test, fishmethods, FSAdata, knitr, lmtest, marked,
nlstools, Rcapture, testthat, rmarkdown
fishmethods, FSAdata, knitr, marked, nlstools, Rcapture,
testthat, rmarkdown
asbio, DescTools, fishmethods, FSAdata, knitr, marked, nlme,
nlstools, psych, Rcapture, testthat, rmarkdown
asbio, DescTools, fishmethods, FSAdata, knitr, marked, nlme,
nlstools, pkgdown, psych, Rcapture, testthat, rmarkdown
DescTools, fishmethods, FSAdata, knitr, marked, nlme,
nlstools, pkgdown, psych, Rcapture, testthat, rmarkdown
car, dplyr, dunn.test, fishmethods, FSAdata, gdata, gplots,
Hmisc, knitr, lmtest, marked, nlstools, Rcapture, relax,
sciplot, testthat, rmarkdown
DescTools, fishmethods, FSAdata, knitr, marked, nlme,
nlstools, pkgdown, psych, Rcapture, rmarkdown, testthat, tibble
DescTools, fishmethods, FSAdata, knitr, marked, nlme,
nlstools, pkgdown, psych, Rcapture, rmarkdown, testthat,
tibble, covr
dunn.test, fishmethods, FSAdata, knitr, lmtest, marked,
nlstools, Rcapture, relax, testthat, rmarkdown
DescTools, fishmethods, FSAdata, knitr, marked, nlme,
nlstools, pkgdown, plyr, psych, Rcapture, rmarkdown, testthat,
tibble, covr
DescTools, dplyr, fishmethods, FSAdata, knitr, marked, nlme,
nlstools, pkgdown, plyr, psych, Rcapture, rmarkdown, testthat,
tibble, covr
knitr (>= 1.9), rmarkdown (>= 1.12), testthat
testthat, Matrix, RcppArmadillo, dplyr, RWeka, entropy,
FSelector, randomForest, doSNOW, doParallel, rpart, MASS, covr,
parallel, htmltools, magrittr, knitr, RTCGA.rnaseq, ggplot2,
microbenchmark, pbapply, tibble, rmarkdown
testthat, Matrix, RcppArmadillo, dplyr, RWeka, entropy,
FSelector, randomForest, doParallel, rpart, MASS, covr,
parallel, htmltools, magrittr, knitr, RTCGA.rnaseq, ggplot2,
microbenchmark, pbapply, tibble, rmarkdown, lintr
testthat, Matrix, RcppArmadillo, dplyr, RWeka, entropy,
FSelector, randomForest, doParallel, rpart, MASS, covr,
parallel, htmltools, magrittr, knitr, RTCGA.rnaseq, ggplot2,
microbenchmark, pbapply, tibble, rmarkdown, lintr, pkgdown
testthat, Matrix, RcppArmadillo, dplyr, RWeka, entropy,
FSelector, randomForest, doParallel, rpart, MASS, covr,
parallel, htmltools, magrittr, knitr, RTCGA.rnaseq, ggplot2,
microbenchmark, pbapply, tibble, rmarkdown, lintr, pkgdown,
withr
plotrix, relaimpo, nortest, lmtest, car, kernlab, usdm,
hier.part
RUnit, glmnet, knitr, xgboost, rmarkdown
RUnit, glmnet, knitr, xgboost, rmarkdown, pROC
flexclust, clustMixType, knitr, rmarkdown, testthat, attempt,
ClustImpute, covr
covr, ggplot2, testthat, rgdal, ncdf4, usethis
testthat (>= 3.0.0), spelling, rlang, glue, knitr, rmarkdown
fCalendar, moments, distrEx, tseries, urca, uroot, lmtest, sandwich
fCalendar, moments, distrEx, tseries, urca, uroot, lmtest, sandwich, psych, GPArotation, fUtilities, chron, polynom, fUnitRoots, e1071
fCalendar, moments, distrEx, tseries, urca, lmtest, sandwich,
psych, GPArotation, fUtilities, chron, polynom, fUnitRoots,
e1071
fCalendar, moments, distrEx, tseries, urca, lmtest, sandwich,
psych, GPArotation, fUtilities, chron, polynom, fUnitRoots,
e1071, polynomial
moments, distrEx, tseries, urca, lmtest, sandwich, psych,
GPArotation, chron, polynom, fUnitRoots, e1071
moments, distrEx, tseries, urca, lmtest, sandwich, psych,
GPArotation, chron, polynom, e1071
foreach, XML (>= 3.96.1.1), testthat, its, timeSeries
foreach, XML (>= 3.96.1.1), testthat, timeSeries
testthat, schumaker, cubature, knitr, foreach, doParallel
testthat, schumaker, cubature, knitr, foreach, doParallel,
SQUAREM
testthat, schumaker, cubature, knitr, foreach, doParallel,
SQUAREM, rmarkdown, qpdf
astsa, mgcv, nlme (>= 3.1-64), testthat (>= 0.9.0), rSFA,
astsa (>= 1.10), fBasics, knitr, mgcv, nlme (>= 3.1-64),
testthat (>= 2.0.0), rSFA,
psd, fBasics, knitr, markdown, mgcv, nlme (>= 3.1-64),
testthat (>= 2.0.0), rSFA,
Ckmeans.1d.dp, DiffXTables, testthat, knitr, rmarkdown
Ckmeans.1d.dp, DiffXTables, GridOnClusters, testthat, knitr,
rmarkdown
Ckmeans.1d.dp, DescTools, DiffXTables, GridOnClusters,
infotheo, knitr, rmarkdown, testthat
testthat (>= 2.1.0), knitr, rmarkdown, COUNT, tidyr, spelling
testthat (>= 2.1.0), knitr, rmarkdown, COUNT, tidyr
testthat (>= 2.1.0), knitr, rmarkdown, COUNT, tidyr, covr,
Cairo
testthat (>= 3.0.0), knitr, rmarkdown, COUNT, tidyr, covr,
Cairo
knitr, rmarkdown, MASS, ggplot2, mvtnorm
parallel, doParallel, doRNG (>= 1.6), knitr (>= 1.8)
parallel, doParallel, knitr (>= 1.8), markdown (>= 0.7)
parallel, doParallel, doRNG (>= 1.6), knitr (>= 1.8),
rmarkdown (>= 2.0)
knitr, rmarkdown, kableExtra, mapproj, testthat
knitr, rmarkdown, kableExtra, mapproj, tidyr, testthat
BiocStyle, Hmisc, knitr, rmarkdown, testthat
parallel, doParallel, doRNG (>= 1.6), knitr (>= 1.8), lhs,
MASS, caret, mlbench, e1071, nnet, kernlab
knitr, rmarkdown, bindata, rje, testthat
knitr, pander, rmarkdown, testthat, vegan (>= 2.4.2)
rmarkdown, knitr, rmdformats, cluster, WeightedCluster, vcd,
R.rsp
rmarkdown, knitr, rmdformats, cluster, WeightedCluster
CDM, Matrix, testthat, pkgdown, knitr, rmarkdown
CDM, Matrix, testthat, pkgdown, poLCA, stringr, knitr,
rmarkdown
CDM, Matrix, testthat, poLCA, stringr, knitr, rmarkdown
CDM, cdmTools, Matrix, testthat, poLCA, stringr, knitr,
rmarkdown
tidyr, readxl, testthat (>= 3.0.0), covr, magclass, WDI
covr, knitr, magclass, purrr, readxl, rmarkdown, stringr,
testthat (>= 3.0.0), tidyr, WDI, zoo
covr, knitr, magclass, purrr, readxl, rmarkdown, stringr,
testthat (>= 3.0.0), tidyr, usethis, WDI, zoo
gstat, sp, fda, fda.usc, mvtnorm, testthat
gstat, sp, fda, fda.usc, mvtnorm, testthat, knitr, rmarkdown
gstat, sp, fda, fda.usc, mvtnorm, patchwork, spatstat,
testthat, knitr
gstat, sp, fda, fda.usc, mvtnorm, patchwork, spatstat,
testthat, R.rsp
gstat, sp, fda, fda.usc, mvtnorm, patchwork, spatstat.geom,
spatstat.core, spatstat.linnet, spatstat (>= 2.0-0), testthat,
R.rsp
gstat, sp, fda, fda.usc, mvtnorm, testthat, knitr
crayon, geoR, gstat, sp, fda, fda.usc, locfit, mvtnorm,
patchwork, spatstat.geom, spatstat.core, spatstat.linnet,
spatstat (>= 2.0-0), testthat, R.rsp
crayon, geoR, gstat, sp, fda, fda.usc, locfit, mvtnorm,
patchwork, spatstat.geom, spatstat.explore, spatstat.model,
testthat, R.rsp
RGtk2 (>= 2.20.31), HSAUR, knitr, rmarkdown
RGtk2 (>= 2.20.31), knitr, rmarkdown, HSAUR
MASS, signal, seewave, zoo, mmap, bitops
MASS, signal, seewave, zoo, mmap, bitops, matlab
MASS, signal, zoo, mmap, bitops, matlab, GENEAread
MASS, signal, zoo, mmap, bitops, matlab, GENEAread, tuneR
MASS, signal, zoo, mmap, bitops, matlab, GENEAread, tuneR,
testthat, covr
MASS, signal, zoo, mmap, bitops, matlab, GENEAread, tuneR,
testthat, covr, knitr, rmarkdown
testthat, covr, knitr, rmarkdown, actilifecounts
car, corpcor, corrplot, dplyr, NetworkToolbox,
NetworkComparisonTest, nlshrink, rmarkdown, knitr
scagnostics, intergraph (>= 2.0-0), network (>= 1.7.2),
RColorBrewer (>= 1.0-5), sna (>= 2.3-1)
broom (>= 0.4.0), geosphere (>= 1.5-1), igraph (>= 1.0.1),
intergraph (>= 2.0-2), maps (>= 3.1.0), mapproj, network (>=
1.12.0), RColorBrewer, scagnostics, scales (>= 0.4.0), sna (>=
2.3-2), survival, knitr, rmarkdown, roxygen2, testthat
broom (>= 0.4.0), chemometrics, geosphere (>= 1.5-1), igraph
(>= 1.0.1), intergraph (>= 2.0-2), maps (>= 3.1.0), mapproj,
network (>= 1.12.0), scagnostics, scales (>= 0.4.0), sna (>=
2.3-2), survival, packagedocs (>= 0.4.0), rmarkdown, roxygen2,
testthat
broom (>= 0.4.0), chemometrics, geosphere (>= 1.5-1), igraph
(>= 1.0.1), intergraph (>= 2.0-2), maps (>= 3.1.0), mapproj,
network (>= 1.12.0), scagnostics, scales (>= 0.4.0), sna (>=
2.3-2), survival, packagedocs (>= 0.4.0), rmarkdown, roxygen2,
testthat, crosstalk
broom (>= 0.4.0), chemometrics, geosphere (>= 1.5-1),
ggforce, Hmisc, igraph (>= 1.0.1), intergraph (>= 2.0-2), maps
(>= 3.1.0), mapproj, network (>= 1.12.0), scagnostics, sna (>=
2.3-2), survival, rmarkdown, roxygen2, testthat, crosstalk,
knitr, spelling
broom (>= 0.7.0), broom.helpers (>= 1.1.0), chemometrics,
geosphere (>= 1.5-1), ggforce, Hmisc, igraph (>= 1.0.1),
intergraph (>= 2.0-2), labelled, maps (>= 3.1.0), mapproj,
nnet, network (>= 1.12.0), scagnostics, sna (>= 2.3-2),
survival, rmarkdown, roxygen2, testthat, crosstalk, knitr,
spelling
broom (>= 0.7.0), broom.helpers (>= 1.1.0), chemometrics,
geosphere (>= 1.5-1), ggforce, Hmisc, igraph (>= 1.0.1),
intergraph (>= 2.0-2), labelled, maps (>= 3.1.0), mapproj,
nnet, network (>= 1.12.0), scagnostics, sna (>= 2.3-2),
survival, rmarkdown, roxygen2, testthat, crosstalk, knitr,
spelling, emmeans
broom (>= 0.7.0), broom.helpers (>= 1.1.0), chemometrics,
geosphere (>= 1.5-1), ggforce, Hmisc, igraph (>= 1.0.1),
intergraph (>= 2.0-2), labelled, maps (>= 3.1.0), mapproj,
nnet, network (>= 1.17.1), scagnostics, sna (>= 2.3-2),
survival, rmarkdown, roxygen2, testthat, crosstalk, knitr,
spelling, emmeans
lattice, knitr, rmarkdown, pkgdown, multcomp
lattice, knitr, rmarkdown, pkgdown, multcomp, emmeans,
estimability, optimParallel
lattice, knitr, rmarkdown, pkgdown, multcomp, emmeans,
estimability, effects, DHARMa, optimParallel
knitr, rmarkdown, testthat, dplyr, ggplot2, gridExtra,
gtools, tidyr
knitr, rmarkdown, testthat (>= 3.0.0), dplyr, ggplot2,
gridExtra, gtools, tidyr
idr, Hmisc, RColorBrewer, foreach, jpeg, testthat (>= 0.3),
knitr
idr, Hmisc, RColorBrewer, foreach, jpeg, testthat (>= 0.3),
knitr, covr
idr, Hmisc, RColorBrewer, foreach, jpeg, testthat (>= 0.3),
knitr, rmarkdown, shiny, shinydashboard, shinyBS,
rhandsontable, DT
knitr, rmarkdown, testthat, devtools, BIEN
knitr, rmarkdown, testthat, devtools, vcr (>= 0.6.0)
GOstats, cluster (>= 1.11.7), mclust (>= 3.1), annotate, topGO
testthat, knitr, rmarkdown, signal, float
parallel, rmarkdown, hexSticker, knitr, DT (>= 0.2)
testthat (>= 2.1.0), spelling, knitr, rmarkdown
BGLR, e1071, ggplot2, knitr, randomForest
BGLR, e1071, ggplot2, knitr, randomForest, rmarkdown
soiltexture, spatstat, plyr, splines, mda, psych, fossil,
nnet, SDMTools, rJava (>= 0.5-0)
soiltexture, plyr, splines, mda, psych, fossil, maptools,
nnet, SDMTools, rJava (>= 0.5-0)
RCurl, tools, soiltexture, spatstat, stringr, plyr, XML,
splines, mda, psych, nortest, fossil, AICcmodavg, maptools,
nnet, SDMTools, rJava (>= 0.5-0)
utils, RCurl, tools, soiltexture, spatstat, stringr, plyr,
XML, splines, mda, psych, nortest, fossil, AICcmodavg,
maptools, nnet, SDMTools, rJava (>= 0.5-0), gdalUtils, rjson
rjson, RCurl, tools, soiltexture, spatstat, stringr, plyr,
XML, splines, mda, psych, nortest, fossil, AICcmodavg,
maptools, nnet, SDMTools, rJava (>= 0.5-0), gdalUtils
rjson, RCurl, soiltexture, spatstat, stringr, plyr, XML,
splines, mda, psych, nortest, reshape, fossil, AICcmodavg,
maptools, nnet, SDMTools, rJava (>= 0.5-0), spacetime,
gdalUtils, tools
rjson, RCurl, soiltexture, spatstat, stringr, XML, boot,
splines, mda, psych, nortest, rpart, quantregForest,
randomForest, nlme, reshape, fossil, AICcmodavg, maptools,
nnet, SDMTools, rJava (>= 0.5-0), spacetime, gdalUtils, tools,
maxlike
rjson, RCurl, soiltexture, spatstat, stringr, XML, boot,
splines, mda, psych, nortest, rpart, quantregForest,
randomForest, nlme, reshape, fossil, AICcmodavg, maptools,
nnet, SDMTools, rJava (>= 0.5-0), spacetime, gdalUtils, tools,
maxlike, Hmisc
rjson, RCurl, soiltexture, spatstat, stringr, XML, boot,
splines, mda, psych, nortest, rpart, quantregForest,
randomForest, nlme, reshape, fossil, AICcmodavg, maptools,
nnet, SDMTools, rJava (>= 0.5-0), spacetime, gdalUtils, tools,
maxlike, Hmisc, caret, xgboost, ranger
rjson, RCurl, soiltexture, spatstat, stringr, XML, boot,
splines, mda, psych, nortest, rpart, quantregForest,
randomForest, nlme, reshape, fossil, AICcmodavg, maptools,
nnet, SDMTools, rJava (>= 0.5-0), spacetime, gdalUtils, tools,
maxlike, Hmisc, caret, xgboost, ranger, snowfall
rjson, RCurl, soiltexture, spatstat, stringr, XML, boot,
splines, mda, psych, nortest, rpart, quantregForest,
randomForest, nlme, reshape, fossil, AICcmodavg, maptools,
nnet, SDMTools, spacetime, gdalUtils, tools, maxlike, Hmisc,
caret, xgboost, ranger, snowfall
ggalt, ggplot2, knitr, lubridate, plotKML, raster, reshape2,
rgeos, rmarkdown, spacetime, testthat, tibble, tidyr, covr
ggalt, ggplot2, knitr, lubridate, plotKML, raster, reshape2,
rgeos, rmarkdown, roxygen2 (>= 6.0.1), spacetime, testthat,
tibble, tidyr, covr
ggplot2, knitr, lubridate, plotKML, raster, reshape2, rgeos,
rmarkdown, roxygen2 (>= 6.0.1), spacetime, testthat, tibble,
tidyr, covr
ggplot2, ggthemes, gridExtra, knitr, lubridate, mapproj,
maps, plotKML, raster, reshape2, rgeos, rmarkdown, roxygen2 (>=
6.0.1), spacetime, testthat, tibble, tidyr, covr
ggplot2, ggthemes, gridExtra, knitr, lubridate, mapproj,
maps, plotKML, raster, reshape2, rgeos, rmarkdown, roxygen2 (>=
6.0.1), spacetime, testthat, tidyr, covr
ggplot2, ggthemes, gridExtra, knitr, lubridate, mapproj,
maps, plotKML, raster, reshape2, rgdal (>= 1.1-9), rgeos,
rmarkdown, roxygen2 (>= 6.0.1), sf, sp, spacetime, testthat,
tidyr, covr
covr, ggplot2, ggthemes, gridExtra, knitr, lubridate,
mapproj, maps, plotKML, raster, reshape2, rgdal (>= 1.1-9),
rgeos, rmarkdown, roxygen2 (>= 6.0.1), sf, sp, spacetime,
testthat, tidyr
covr, ggplot2, ggthemes, gridExtra, knitr, lubridate,
mapproj, maps, plotKML, raster, reshape2, rgdal (>= 1.1-9),
rgeos, rmarkdown, roxygen2 (>= 6.1.0), sf, sp, spacetime,
testthat, tidyr
covr, future, ggplot2, ggthemes, gridExtra, knitr, lubridate,
mapproj, maps, plotKML, raster, reshape2, rgdal (>= 1.1-9),
rgeos, rmarkdown, roxygen2 (>= 6.1.0), sf, sp, spacetime,
testthat, tidyr
covr, dplyr, future, ggplot2, gridExtra, knitr, mapproj,
maps, plotKML, reshape2, rgdal (>= 1.1-9), rmarkdown, roxygen2
(>= 6.1.0), sf, skimr, sp, spacetime, testthat, tidyr
dplyr, future, ggplot2, gridExtra, knitr, mapproj, maps,
remotes, rmarkdown, roxygen2 (>= 6.1.0), testthat, tidyr
dplyr, ggplot2, gridExtra, knitr, mapproj, maps, remotes,
rmarkdown, roxygen2 (>= 6.1.0), testthat, tidyr
dplyr, spelling, ggplot2, gridExtra, knitr, mapproj, maps,
remotes, rmarkdown, roxygen2, testthat, tidyr
knitr, rmarkdown, adaptMCMC, xlsx, drc, testthat
testthat, knitr, rmarkdown, microbenchmark, numDeriv
testthat, knitr, rmarkdown, microbenchmark, numDeriv, MASS
testthat, knitr, rmarkdown, microbenchmark, numDeriv,
ContourFunctions, dplyr, ggplot2, ggrepel, lhs, tidyr, MASS
testthat, knitr, rmarkdown, microbenchmark, numDeriv,
ContourFunctions, dplyr, ggplot2, ggrepel, lhs, mixopt (>
0.1.0), tidyr, MASS
qvalue, genetics, haplo.stats, DatABEL (>= 0.9-0)
qvalue, genetics, haplo.stats, DatABEL (>= 0.9-0), hglm,
MetABEL, PredictABEL
qvalue, genetics, haplo.stats, DatABEL (>= 0.9-0), hglm,
MetABEL, PredictABEL, VariABEL
qvalue, genetics, haplo.stats, DatABEL (>= 0.9-0), hglm,
MetABEL, PredictABEL, VariABEL, bigRR
gamlss.dist, GeneralizedHyperbolic, gld, GLDEX, sgt, skewt,
sn, stabledist
testthat, covr, knitr, DiagrammeR, iterators, foreach, tools,
rmarkdown, microbenchmark, doParallel
matrixStats, rgl, grid, mgcv, png, ProjectionBasedClustering,
reshape2, fields
DataVisualizations, DatabionicSwarm, matrixStats, rgl, grid,
mgcv, png, ProjectionBasedClustering, reshape2, fields
DataVisualizations, DatabionicSwarm, matrixStats, rgl, grid,
mgcv, png, ProjectionBasedClustering, reshape2, fields,
ABCanalysis, knitr (>= 1.12), rmarkdown (>= 0.9)
DataVisualizations, DatabionicSwarm, matrixStats, rgl, grid,
mgcv, png, ProjectionBasedClustering, reshape2, fields,
ABCanalysis, plotly, deldir, shiny, knitr (>= 1.12), rmarkdown
(>= 0.9)
DataVisualizations, DatabionicSwarm, rgl, grid, mgcv, png,
ProjectionBasedClustering, reshape2, fields, ABCanalysis,
plotly, deldir, shiny, methods, knitr (>= 1.12), rmarkdown (>=
0.9)
DataVisualizations, rgl, grid, mgcv, png, reshape2, fields,
ABCanalysis, plotly, deldir, methods, knitr (>= 1.12),
rmarkdown (>= 0.9)
knitr, R.rsp, testthat (>= 3.0.0), mvtnorm, ggplot2,
gridExtra, dplyr, microbenchmark
glmnet, ranger, rpart, e1071, testthat (>= 3.0.0)
glmnet, ranger, rpart, e1071, xgboost, kknn, DiceKriging,
testthat (>= 3.0.0)
covr, dplyr, junctions, magrittr, rmarkdown, testit,
testthat, knitr
covr, dplyr, junctions, knitr, magrittr, rmarkdown, testit,
testthat, pbapply
dplyr, junctions, knitr, magrittr, rmarkdown, testit,
testthat, pbapply
testthat, rlang, knitr, rmarkdown, RColorBrewer, rgdal
testthat, rlang, knitr, rmarkdown, RColorBrewer, rgdal, R.rsp
knitr, rmarkdown, DESeq2, S4Vectors, ChAMP, impute, tidyr,
clusterProfiler, org.Hs.eg.db, edgeR, limma, quantreg
knitr, rmarkdown, DESeq2, S4Vectors, ChAMP, impute, tidyr,
clusterProfiler
knitr, rmarkdown, DESeq2, S4Vectors, ChAMP, impute, tidyr,
clusterProfiler, org.Hs.eg.db, edgeR, limma, quantreg, minfi,
IlluminaHumanMethylation450kanno.ilmn12.hg19, dearseq, NOISeq
testthat (>= 3.0.0), rmarkdown, knitr, covr
knitr, rmarkdown, testthat, ggplot2, tidyverse
knitr, rmarkdown, testthat (>= 3.0.0), ggplot2
knitr, rmarkdown, testthat, ggplot2, covr
knitr, rmarkdown, testthat (>= 3.0.0), ggplot2, covr, fs
testthat (>= 1.0.0), knitr, markdown, rmarkdown
GlobalAncova, globaltest, fdrtool, st, limma, DESeq
GlobalAncova, globaltest, fdrtool, st, limma, DESeq2
covr, ggplot2, GillespieSSA, knitr, rmarkdown, testthat (>=
2.1.0)
ggplot2, GillespieSSA, knitr, rmarkdown, testthat (>= 2.1.0)
testthat (>= 3.0.0), knitr, rmarkdown, covr
testthat (>= 1.0.0), knitr, markdown, GetoptLong
archdata (>= 1.2), gdistance (>= 1.2-2), resample (>= 0.4)
datasets, dplyr, jsonlite, testthat, tidyselect
fields, knitr, rmarkdown, testthat, maps, maptools
boot, testthat, cmprsk, survival, dplyr, ggplot2, parallel
boot, testthat, cmprsk, survival, dplyr, ggplot2
boot, testthat, cmprsk, survival, dplyr, ggplot2, parallel,
rmarkdown
boot, testthat, cmprsk, survival, dplyr, ggplot2, parallel,
rmarkdown, rmeta
boot, testthat, cmprsk, survival, ggplot2, parallel,
rmarkdown, rmeta, tidyverse
Ckmeans.1d.dp, FunChisq, knitr, testthat (>= 2.1.0),
rmarkdown
FunChisq, knitr, testthat (>= 2.1.0), rmarkdown
knitr, tinytest, rmarkdown, ggplot2, gridExtra
knitr, spdep, ade4, adegraphics, adespatial, maptools,
RColorBrewer, corrgram, car, rmarkdown, ggplot2, ggrepel
knitr, spdep, ade4, adegraphics, adespatial, maptools,
RColorBrewer, corrgram, car, rmarkdown, ggplot2, ggrepel,
heplots, patchwork, candisc, colorspace
knitr, spdep, ade4, adegraphics, adespatial, RColorBrewer,
corrgram, car, effects, rmarkdown, ggplot2, ggrepel, heplots,
patchwork, candisc, colorspace, scales, remotes, dplyr, tidyr
BinaryDosage, testthat (>= 2.1.0), covr, knitr, rmarkdown
testthat, covr, httr, shiny, knitr, rmarkdown
ggplot2, testthat, EstimDiagnostics, MASS, corpcor, waldo
methods, abind, mvtnorm, car, RcmdrPlugin.HH
methods, mvtnorm, car, Rcmdr, RcmdrPlugin.HH, TeachingDemos
mvtnorm, car, Rcmdr, RcmdrPlugin.HH, TeachingDemos
mvtnorm, car, Rcmdr, RcmdrPlugin.HH, TeachingDemos, microplot
testthat, knitr, rmarkdown, lintr, webmockr
mlmRev, WWGbook, lme4 (>= 1.0), nlme, testthat, knitr,
rmarkdown, car, gridExtra, qqplotr
RGtk2 (>= 2.8.0), cairoDevice, RGtk2Extras
RGtk2 (>= 2.8.0), cairoDevice, RGtk2Extras, testthat
maptools ,rgdal, rgeos, RColorBrewer, classInt, knitr
sf, tidyverse, sp, maptools ,rgdal, rgeos, RColorBrewer,
classInt, markdown, knitr
sf, tidyverse, maptools ,rgdal, rgeos, RColorBrewer,
classInt, markdown, knitr
alr3, ape (>= 1.6), coin (>= 0.3-3), flexmix (>= 1.1-0), gee
(>= 4.13-10), ipred (>= 0.8-3), lme4 (>= 0.98-1), mclust (>=
3.0-0), party (>= 0.2-8), randomForest (>= 4.5-12), rmeta (>=
2.12), vcd (>= 0.9-3), survival, rpart, gamair, multcomp (>=
1.0-3), sandwich, mboost, KernSmooth, Matrix, boot, mgcv,
mvtnorm, partykit
lattice, MASS, scatterplot3d (>= 0.3-23), alr3, ape (>= 1.6),
coin (>= 0.3-3), flexmix (>= 1.1-0), gee (>= 4.13-10), lme4 (>=
0.98-1), mclust (>= 3.0-0), party (>= 0.2-8), randomForest (>=
4.5-12), rmeta (>= 2.12), vcd (>= 0.9-3), survival, rpart,
gamair, multcomp (>= 1.0-3), sandwich, mboost, KernSmooth,
Matrix, boot, mgcv, mvtnorm, partykit, tm, wordcloud, TH.data
lattice, MASS, scatterplot3d (>= 0.3-23), alr3, ape (>= 1.6),
coin (>= 0.3-3), flexmix (>= 1.1-0), gee (>= 4.13-10), lme4 (>=
0.98-1), mclust (>= 3.0-0), party (>= 0.2-8), randomForest (>=
4.5-12), rmeta (>= 2.12), vcd (>= 0.9-3), survival, rpart,
gamair, multcomp (>= 1.0-3), sandwich, mboost, KernSmooth,
Matrix, boot, mgcv, mvtnorm, partykit, wordcloud, TH.data
lattice, MASS, scatterplot3d (>= 0.3-23), alr3, ape (>= 1.6),
coin (>= 1.1-3), flexmix (>= 1.1-0), gee (>= 4.13-10), lme4 (>=
0.98-1), mclust (>= 3.0-0), party (>= 0.2-8), randomForest (>=
4.5-12), rmeta (>= 2.12), vcd (>= 0.9-3), survival, rpart,
gamair, multcomp (>= 1.0-3), sandwich, mboost, KernSmooth,
Matrix, boot, mgcv, mvtnorm, partykit, wordcloud, TH.data
lattice, MASS, scatterplot3d (>= 0.3-23), ape (>= 1.6), coin
(>= 1.1-3), flexmix (>= 1.1-0), gee (>= 4.13-10), lme4 (>=
0.98-1), mclust (>= 3.0-0), party (>= 0.2-8), randomForest (>=
4.5-12), rmeta (>= 2.12), vcd (>= 0.9-3), survival, rpart,
gamair, multcomp (>= 1.0-3), sandwich, mboost, KernSmooth,
Matrix, boot, mgcv, mvtnorm, partykit, wordcloud, TH.data
alr3, ape (>= 1.6), coin (>= 0.3-3), flexmix (>= 1.1-0), gee
(>= 4.13-10), ipred (>= 0.8-3), lme4 (>= 0.98-1), mclust (>=
3.0-0), party (>= 0.2-8), randomForest (>= 4.5-12), rmeta (>=
2.12), vcd (>= 0.9-3), survival, rpart, gamair, multcomp (>=
1.0-3), sandwich, mboost, KernSmooth, Matrix, boot, mgcv,
mvtnorm, partykit, tm, wordcloud
rda, ggplot2, corrplot, testthat (>= 2.0.0), bayesplot,
knitr, rmarkdown
ggplot2, corrplot, testthat (>= 2.1.0), bayesplot, knitr,
rmarkdown
covr, devtools, knitr, testthat, rmarkdown
knitr, knitcitations, adegenet, genetics, parallel
knitr, RefManageR, adegenet, genetics, parallel
ggplot2, rmarkdown, knitr, RefManageR, adegenet, genetics,
parallel
rmarkdown, knitr, htmlwidgets, leaflet, leaflet.extras,
mapview, randomcoloR
rmarkdown, knitr, htmlwidgets, leaflet, leaflet.extras,
mapview, randomcoloR, webshot
covr, digest, knitr, pander, rmarkdown, testthat, vdiffr
spelling, covr, digest, knitr, pander, rmarkdown,
shinycssloaders, testthat, vdiffr
spelling, covr, digest, knitr, pander, rmarkdown,
shinycssloaders, shinyhelper, testthat, vdiffr
spelling, covr, digest, knitr, pander, renv, rmarkdown,
shinycssloaders, shinyhelper, shinyjs, testthat, vdiffr
spelling, covr, digest, gridExtra, knitr, pander, renv,
rmarkdown, shinycssloaders, shinyhelper, shinyjs, testthat,
vdiffr
devtools, knitr, MASS, mda, nnet, pkgload, rmarkdown, rpart,
rprojroot, RUnit, testthat
caTools, devtools, knitr, MASS, mda, nnet, pkgload,
rmarkdown, ROCR, rpart, rprojroot, RUnit, testthat
knitr, Rmpi, ggplot2, testthat, rmarkdown
RNetCDF, ncdf4, maps, XML, fields, shiny
RNetCDF, ncdf4, maps, XML, fields, shiny, Matrix
RNetCDF, ncdf4, maps, XML, fields, shiny, Matrix, ppcor,
pbmcapply, parallel, visNetwork, igraph
RNetCDF, ncdf4, maps, XML, fields, shiny, Matrix, ppcor,
pbmcapply, pbapply, parallel, visNetwork, igraph
RNetCDF, ncdf4, maps, fields, shiny, ppcor, pbmcapply,
pbapply, parallel, visNetwork, igraph
RNetCDF, ncdf4, maps, fields, shiny, ppcor, pbmcapply,
pbapply, parallel, visNetwork, igraph, shinyWidgets
RNetCDF, ncdf4, maps, fields, shiny, ppcor, pbmcapply,
pbapply, parallel, visNetwork, igraph, shinyWidgets, cranlogs
RNetCDF, ncdf4, maps, fields, shiny, ppcor, pbmcapply,
Matrix, pbapply, parallel, visNetwork, igraph, shinyWidgets,
cranlogs
lme4, RNetCDF, ncdf4, maps, fields, shiny, ppcor, pbmcapply,
pbapply, parallel, visNetwork, igraph, shinyWidgets, cranlogs
covr, devtools, knitr, rmarkdown, roxygen2, spelling,
testthat
gtools, KernSmooth, maps, ggplot2, proto, grid, reshape,
plyr, lattice, ReadImages, car
gtools, KernSmooth, maps, ggplot2, proto, grid, reshape,
plyr, lattice, ReadImages, car, gplots, sp, heplots
gtools, KernSmooth, maps, ggplot2, proto, grid, reshape,
plyr, lattice, ReadImages, jpeg, car, gplots, sp, heplots,
lattice
gtools, KernSmooth, maps, ggplot2, proto, grid, reshape,
plyr, lattice, jpeg, car, gplots, sp, heplots
gtools, KernSmooth, maps, ggplot2, proto, grid, reshape,
plyr, lattice, jpeg, car, gplots, sp, heplots, knitr, rmarkdown
gtools, KernSmooth, maps, ggplot2, proto, grid, reshape,
plyr, lattice, jpeg, car, gplots, sp, heplots, knitr,
rmarkdown, effects, lubridate
gtools, KernSmooth, maps, ggplot2, scales, proto, grid,
reshape, plyr, lattice, jpeg, car, gplots, sp, heplots, knitr,
rmarkdown, effects, lubridate, gridExtra
gtools, KernSmooth, maps, ggplot2, scales, proto, grid,
reshape, plyr, lattice, jpeg, car, gplots, sp, heplots, knitr,
rmarkdown, effects, lubridate, gridExtra, vcd, MASS
mvbutils, FuncMap, lattice, reshape, ppiData, RFOC, ggplot2,
knitr, rgl, bipartite, xtable, sna
mvbutils, FuncMap, lattice, reshape, ggplot2, knitr, rgl,
bipartite, xtable, sna
mvbutils, FuncMap, lattice, reshape, ggplot2, knitr,
bipartite, sna
mvbutils, FuncMap, lattice, reshape, ggplot2, knitr,
bipartite, sna, tcltk, rgl, xtable, tkrgl
FuncMap, knitr, sna, xtable, bipartite, rmarkdown, tint
lattice, grid, nnet, acepack, foreign, chron, survival
lattice, grid, nnet, acepack, foreign, survival, Design
lattice, grid, nnet, acepack, foreign, survival,
TeachingDemos, Design, chron, cluster
lattice, grid, nnet, foreign, chron, acepack, TeachingDemos,
rms, cluster, mice, subselect, tree
lattice, grid, nnet, foreign, chron, acepack, rms, cluster,
rpart, mice
nnet, foreign, chron, acepack, rms, mice, tables, rpart
chron, rms, mice, tables, knitr, ff, ffbase, htmltools
lattice, grid, nnet, acepack, foreign, survival, chron,
TeachingDemos, Design, cluster
lattice, grid, nnet, foreign, survival, chron,
TeachingDemos, Design, cluster
lattice, grid, nnet, foreign, survival, chron, acepack,
TeachingDemos, Design, cluster
lattice, grid, nnet, foreign, chron, acepack, TeachingDemos,
Design, cluster
lattice, grid, nnet, foreign, chron, acepack, TeachingDemos,
Design, cluster, mice, subselect
lattice, grid, nnet, foreign, chron, acepack, TeachingDemos,
rms, cluster, mice, subselect
chron, rms, mice, tables, knitr, ff, ffbase, plotly (>=
4.5.2)
chron, rms, mice, tables, knitr, ff, ffbase, plotly (>=
4.5.6)
chron, rms, mice, tables, knitr, ff, ffbase, plotly (>=
4.5.6), rlang
acepack, chron, rms, mice, tables, knitr, plotly (>= 4.5.6),
rlang, plyr
acepack, chron, rms, mice, tables, knitr, plotly (>= 4.5.6),
rlang, plyr, VGAM
acepack, chron, rms, mice, rstudioapi, tables, knitr, plotly
(>= 4.5.6), rlang, plyr, VGAM
testthat (>= 3.0.0), knitr, rmarkdown, tinytest
rmarkdown, knitr, markdown, testthat (>= 3.0.0), spelling
rmarkdown, knitr, markdown, testthat (>= 3.0.0), spelling,
covr
knitr, RCurl, rmarkdown, survival, testthat
testthat, Bessel, jack, knitr, rmarkdown
testthat, Bessel, jack, knitr, rmarkdown, complexplus
RcppArmadillo, knitr, rmarkdown, bookdown, ggfortify, magick,
colorspace, gridExtra
testthat (>= 3.0.0), knitr, rmarkdown, rvest
ggnewscale, ggplot2, knitr, metR, ncf, rmarkdown, testthat
(>= 3.0.0)
shinytest, shinytest2, testthat, knitr, rmarkdown, spelling,
dplyr
GPfit, laGP, mlegp, tgp, DiceKriging, GauPro, testthat, lhs,
ggplot2, reshape, numDeriv
GPfit, laGP, mlegp, tgp, DiceKriging, CGP, GauPro, hetGP,
testthat, lhs, ggplot2, reshape, ContourFunctions, numDeriv
gmp, knitr, mcclust, methods, rmarkdown, Rmpfr
gmp (>= 0.5-4), knitr, mcclust, rmarkdown, Rmpfr
Rcpp, testthat, withr, shinydashboard, ComplexHeatmap, grid,
keyring, PlayerRatings, xtable, igraph
Rcpp, testthat, withr, ComplexHeatmap, grid, keyring,
PlayerRatings, xtable, igraph
Rcpp, testthat, withr, ComplexHeatmap, grid, keyring,
PlayerRatings, xtable, shinyjs, colourpicker, bsplus, DT,
kableExtra, markdown, igraph, shinydashboard
knitr, rmarkdown, purrr, ggplot2, testthat (>= 3.0.0)
knitr, rmarkdown, kableExtra, testthat (>= 3.0.0)
MCMCglmm, truncnorm, mvtnorm, methods, MCMCpack, fields
abind, car (>= 1.0-15), effects (>= 1.0-7), foreign, grid, lattice, lmtest, MASS, mgcv, multcomp, nlme, nnet, qcc, relimp, rgl, RODBC
abind, distr, distrEx, effects (>= 1.0-7), foreign, grid, lattice, lmtest, MASS, mgcv, multcomp (>= 0.991-2), nlme, nnet, qcc, relimp, rgl, RODBC
actuar, aplpack, coin, DAAG, distr, distrEx, distrTeach,
e1071, exactRankTests, HH (>= 2.1-32), Hmisc, lattice, lmtest,
mvtnorm, odfWeave, prob, qcc, RcmdrPlugin.IPSUR (>= 0.1-6),
Rcmdr, reshape, scatterplot3d, TeachingDemos (>= 2.5), vcd
actuar, aplpack, coin, combinat, DAAG, diagram, distrEx,
distrTeach, e1071, exactRankTests, HH (>= 2.1-32), Hmisc,
lattice, lmtest, mvtnorm, odfWeave, prob, qcc,
RcmdrPlugin.IPSUR (>= 0.1-6), Rcmdr, reshape, scatterplot3d,
TeachingDemos (>= 2.5), vcd
actuar, aplpack, boot, coin, combinat, DAAG, diagram, distr,
distrEx, distrTeach, e1071, exactRankTests, HH (>= 2.1-32),
Hmisc, lattice, lmtest, mvtnorm, odfWeave, prob, qcc,
RcmdrPlugin.IPSUR (>= 0.1-6), Rcmdr, reshape, scatterplot3d,
TeachingDemos (>= 2.5), vcd
actuar, aplpack, boot, coin, combinat, DAAG, diagram, distr,
distrEx, distrTeach, e1071, HH (>= 2.1-32), Hmisc, lattice,
lmtest, mvtnorm, odfWeave, prob, qcc, RcmdrPlugin.IPSUR (>=
0.1-6), Rcmdr, reshape, scatterplot3d, TeachingDemos (>= 2.5),
vcd
diagram, emdbook, ggplot2, knitr, lattice, RcmdrMisc,
rmarkdown
knitr, rmarkdown, extrafont, readxl, cowplot, gplots
rpart, e1071, earth, randomForest, mgcv, reshape
devtools, knitr, readr, testthat (>= 0.9)
geosphere, fields, knitr, rmarkdown, viridis
rmarkdown, knitr, lubridate, DT, mapview, grDevices,
stargazer, reshape2, plotly, geodist, CopernicusDEM, terra,
testthat (>= 3.0.0)
rmarkdown, knitr, DT, mapview, grDevices, stargazer,
reshape2, plotly, geodist, CopernicusDEM, terra, testthat (>=
3.0.0)
shiny, shinyBS, shinythemes, compareGroups, foreign
knitr, dtw, microbenchmark, rmarkdown, gridExtra
knitr, dtw, rbenchmark, rmarkdown, gridExtra
knitr, dtw, rmarkdown, gridExtra, testthat, dtwclust,
parallelDist, microbenchmark, rucrdtw, proxy
knitr, dtw, rmarkdown, gridExtra, testthat, dtwclust,
parallelDist, microbenchmark, rucrdtw, proxy, R.rsp
knitr, dtw, rmarkdown, gridExtra, testthat, dtwclust,
parallelDist, microbenchmark, rucrdtw, proxy, R.rsp,
dendextend, reshape2, colorspace, fastcluster
DBI, doParallel, foreach, parallel, RSQLite, testthat (>=
3.0.0)
config, pkgload, rsconnect, testthat (>= 3.0.0)
Cairo, GISTools, lattice, maps, tools, RandomFields, R.rsp,
rgdal, viridisLite
Cairo, GISTools, lattice, maps, maptools, RandomFields,
R.rsp, rgdal, rgeos
gmp, magick, maps, maptools, RandomFields, rgeos, rgl,
testthat
gmp, magick, maps, maptools, RandomFields, rgeos, rgdal, rgl,
testthat
gmp, magick, maps, maptools, rgeos, rgdal, rgl, testthat
colorspace, gmp, magick, maps, maptools, rgeos, rgdal, rgl,
testthat
covr, future, knitr, listenv, lme4, modeltests (>= 0.1.0),
MplusAutomation (>= 0.7), progress, rmarkdown, roxygen2,
simsalapar, sfsmisc, spelling, TAM, testthat (>= 2.1.0)
covr, future, knitr, listenv, lme4, modeltests (>= 0.1.0),
MplusAutomation (>= 0.7), progress, rmarkdown, roxygen2,
simsalapar, sfsmisc, spelling, TAM (>= 3.5-19), testthat (>=
2.1.0)
BurStFin, data.table, dplyr, DescTools, fAssets, fBasics,
forecast, FRAPO, h2o, iClick, keras, MASS, quantmod, rugarch,
tensorflow, tibble, timeDate, timeSeries, timetk,
BurStFin, data.table, DescTools, fAssets, fBasics, forecast,
FRAPO, h2o, iClick, keras, MASS, quantmod, rugarch, tensorflow,
tibble, timeDate, timeSeries, timetk,
BurStFin, data.table, fAssets, fBasics, forecast, FRAPO,
htmltools, iClick, knitr, lubridate, MASS, openxlsx, quantmod,
rmarkdown, rugarch, timeDate, timeSeries
covr, markdown, rmarkdown, roxygen2, testthat (>= 3.0.2),
withr
covr, lavaan, markdown, mediation, patchwork, performance,
processR, rmarkdown, roxygen2, see (>= 0.6.5), stringr,
testthat (>= 3.0.2), vdiffr, withr
scales, foreach, testthat (>= 2.1.0), covr, knitr, rmarkdown,
pander, GPArotation
scales, foreach, testthat (>= 3.0.0), covr, withr, knitr,
rmarkdown, pander, GPArotation
knitr, dplyr, tidyr, ggplot2, microbenchmark
stats, knitr, dplyr, tidyr, ggplot2, microbenchmark
stats, knitr, dplyr, tidyr, ggplot2, rbenchmark
stats, knitr, dplyr, tidyr, ggplot2, rbenchmark, rmarkdown
covr, testthat (>= 2.1.0), knitr, rmarkdown, dplyr
knitr, rmarkdown, foreign, ggplot2, reshape2
knitr, rmarkdown, foreign, ggplot2, ggpubr, testthat
knitr, rmarkdown, bookdown, foreign, ggplot2, ggpubr,
testthat
knitr, rmarkdown, bookdown, foreign, ggplot2, ggpubr,
survival, testthat
knitr, rmarkdown, bookdown, foreign, ggplot2, ggpubr,
testthat, covr, doFuture
knitr, rmarkdown, bookdown, foreign, ggplot2, ggpubr,
testthat, covr
broom, covr, devtools, extrafont, knitr, rmarkdown, simsurv,
testthat, usethis
broom, covr, devtools, knitr, rmarkdown, simsurv, testthat,
usethis
data.table, colorRamps, plotly, knitr, rmarkdown, testthat
datasets, ggplot2, gridExtra, mclust, mvtnorm
ggplot2, plyr, reshape2, googleVis, testthat, microbenchmark
knitr, rmarkdown, testthat, pracma, raster, tilting
knitr, rmarkdown, testthat, pracma, raster
testthat (>= 3.0.0), knitr, rmarkdown, devtools
testthat, knitr, rmarkdown, devtools, prettydoc, R.rsp
testthat, knitr, rmarkdown, devtools, R.rsp, printr, ggplot2
colorspace, knitr, scales, shinyBS, rmarkdown
knitr, RColorBrewer, rmarkdown, Rmpfr, scales, magrittr
knitr, pkgdown, rmarkdown, testthat, vdiffr, clue, RCurl,
tidyr
dplyr, here, knitr, pkgdown, rmarkdown, testthat, vdiffr,
clue, reshape, RCurl, tidyr
knitr, pkgdown, rmarkdown, testthat, vdiffr
mallet, lda, topicmodels, gistr (>= 0.0.8.99), servr, shiny,
knitr, rmarkdown
mallet, lda, topicmodels, gistr (>= 0.0.8.99), servr, shiny,
knitr, rmarkdown, digest, htmltools
rmarkdown, knitr, Cubist, earth, gbm, glmnet, gridExtra,
kernlab, randomForest, tidyr, testthat (>= 3.0.0)
rtracklayer, GenomicRanges, chopsticks (>= 1.18.0), lattice
rtracklayer, GenomicRanges, chopsticks (>= 1.18.0), lattice,
ggplot2
rtracklayer, GenomicRanges, GenomeInfoDb, IRanges, lattice,
ggplot2
rtracklayer, GenomicRanges, GenomeInfoDb, IRanges, lattice,
ggplot2, vcfR
rtracklayer, GenomicRanges, GenomeInfoDb, IRanges, lattice,
ggplot2, vcfR, RColorBrewer
mvtnorm, elasticnet, MASS, randomForest, pls, gtools
rmarkdown, pROC (>= 1.16.2), knitr, caret, utils
rmarkdown, pROC (>= 1.16.2), knitr, utils, caret, ggplot2
knitr, rmarkdown, ggformula, testthat (>= 3.0.0)
LCFdata, rgl, mgcv, multicore, languageR
LCFdata, rgl, fields, mgcv, parallel, languageR
AICcmodavg, data.table, nlmeU, optimx, Publish, qqtest,
R.rsp, testthat
AICcmodavg, data.table, ggpubr, lattice, nlmeU, optimx,
psych, Publish, qqtest, R.rsp, testthat
AICcmodavg, data.table, ggpubr, lattice, mvtnorm, nlmeU,
optimx, psych, Publish, qqtest, R.rsp, testthat
AICcmodavg, copula, data.table, ggpubr, lattice, mvtnorm,
nlmeU, optimx, psych, Publish, qqtest, R.rsp, testthat
AICcmodavg, asht, data.table, ggpubr, lattice, mvtnorm, lme4,
lmerTest, nlmeU, optimx, psych, Publish, qqtest, R.rsp,
reshape2, testthat
AICcmodavg, asht, data.table, ggpubr, lattice, mvtnorm, lme4,
lmerTest, mice, nlmeU, optimx, psych, Publish, qqtest, R.rsp,
reshape2, testthat
testthat, numDeriv, mniw, knitr, rmarkdown, bookdown,
kableExtra
testthat, rmarkdown, pkgdown, ggplot2, knitr, devtools
covr, EnvStats, testthat, lmtest, knitr, rmarkdown
BIFIEsurvey, TAM, miceadds, sirt, mice, pls, WrightMap, irr,
lavaan, difR, kerdiest, glmnet, mirt, car, mitml, matrixStats,
combinat, xtable, tensor, gtools, plyr, prettyR, gridExtra,
lattice
knitr, rmarkdown, ggplot2, dplyr, scales, NFCP
raster, sp, rasterVis, lattice, latticeExtra,RColorBrewer
rmarkdown, tidyverse, ggplot2, testthat (>= 3.0.0)
Formula, rpart.plot, knitr, rmarkdown, interval
sirad, knitr, rmarkdown, roxygen2, testthat
lattice, ggplot2, googleVis, data.table, vcd, plyr
lattice, ggplot2, googleVis, data.table, vcd
lattice, ggplot2, googleVis, data.table, vcd, reshape2,
tidyr, knitr, rmarkdown, car
lattice, ggplot2, googleVis, data.table, vcd, plyr, reshape2,
zipcode
lattice, ggplot2, googleVis, data.table, vcd, reshape2,
tidyr, zipcode
lattice, ggplot2, googleVis, data.table, vcd, reshape2,
tidyr, zipcode, knitr, rmarkdown, car
Rsolnp, nortest, numDeriv, testthat (>= 0.9.0), gsl
boot, Rsolnp, nortest, numDeriv, testthat, gsl, moments,
boot, Rsolnp, nortest, numDeriv, testthat, moments,
boot, Rsolnp, nortest, numDeriv, testthat, data.table,
moments, knitr, vars,
boot, Rsolnp, nortest, numDeriv, testthat, data.table,
moments, knitr, markdown, vars,
testthat (>= 3.0.0), knitr, rmarkdown, JM
ChemoSpec, chemometrics, kableExtra, knitr, tinytest, roxut,
bookdown, rmarkdown, plot3D, ade4, plotrix, latex2exp, plotly,
xtable
ChemoSpec, chemometrics, kableExtra, knitr, tinytest, roxut,
bookdown, rmarkdown, plot3D, ade4, plotrix, latex2exp, plotly,
xtable, htmlwidgets
ChemoSpec, chemometrics, knitr, tinytest, roxut, bookdown,
rmarkdown, plot3D, ade4, plotrix, latex2exp, plotly, xtable,
htmlwidgets
ChemoSpec, chemometrics, knitr, tinytest, roxut, rmarkdown,
plot3D, ade4, plotrix, latex2exp, plotly, xtable, bookdown,
tidyverse, knitr, rmarkdown, testthat, future.apply, tictoc
corpustools, covr, diffobj, dplyr, RSQLite, testthat,
tidytext, tm, kableExtra, knitr, rmarkdown
corpustools, covr, diffobj, dplyr, RSQLite, testthat,
tidytext, tm, kableExtra, knitr, rmarkdown, spelling
corpustools, covr, diffobj, dplyr, RSQLite, testthat,
tidytext, tm, kableExtra, knitr, pdftools, rmarkdown, spelling,
striprtf
corpustools, covr, diffobj, dplyr, RSQLite, testthat,
tidytext, tm, kableExtra, knitr, pdftools, rmarkdown, spelling,
striprtf, xml2
knitr, rmarkdown, pander, kableExtra, magrittr, tibble,
testthat
knitr, rmarkdown, magrittr, tibble, testthat
qtl (>= 1.39-5), rmarkdown, testthat, knitr
colorspace, RColorBrewer, TeachingDemos, data.table,
dendextend, ggplot2, gplots, gridExtra, rpart, rpart.plot,
xtable
colorspace, RColorBrewer, TeachingDemos, data.table, ggplot2,
gridExtra, rpart, rpart.plot, xtable
deSolve, knitr, markdown, remotes, rmarkdown, utils
knitr, testthat (>= 0.8), RNetCDF (>= 1.6.1)
RGtk2 (>= 2.20.31), knitr, rmarkdown, HSAUR, tidyr
RGtk2 (>= 2.20.31), knitr, rmarkdown, HSAUR, tidyr, GFD
RGtk2 (>= 2.20.31), knitr, rmarkdown, HSAUR, tidyr, GFD,
testthat
RGtk2 (>= 2.20.31), knitr, rmarkdown, HSAUR, tidyr, GFD,
testthat, tidyverse
RGtk2 (>= 2.20.31), knitr, rmarkdown, HSAUR3, tidyr(>=
1.0.0), ggplot2, GFD, testthat
Formula, Hmisc, lattice, lme4, maps, stringr, survival,
xtable, broom, ggplot2
broom, Formula, ggplot2, Hmisc, lattice, lme4, maps, Matrix,
stringr, survival, xtable
broom, Formula, ggplot2, Hmisc, lattice, lme4, maps, stringr,
survival, xtable
broom, forecast, Formula, ggplot2, gridExtra, Hmisc, lattice,
lme4, maps, Matrix, stringr, survival, tidyr, xtable
broom, forecast, Formula, ggplot2, gridExtra, Hmisc, lattice,
lme4, maps, Matrix, stringr, survival, tidyr, xtable, testthat
knitr, rmarkdown, patchwork, visreg, tidyverse
gplots (>= 3.0.1), DescTools (>= 0.99.24), knitr, rmarkdown
MASS, sem, boot, nlme, gsl, lavaan, parallel, snow, OpenMx
overlapping (>= 1.5.0), ggplot2 (>= 2.2.1), igraph (>=
1.1.2), RColorBrewer (>= 1.1-2), mcmcplots (>= 0.4.3), testthat
(>= 1.0.2), knitr, rmarkdown
knitr, scales (>= 1.0.0), overlapping (>= 1.5.0), ggplot2 (>=
2.2.1), igraph (>= 1.1.2), rmarkdown, testthat (>= 1.0.2),
RColorBrewer (>= 1.1-2), mcmcplots (>= 0.4.3)
rgl, combinat, mvtnorm, orthopolynom, MCMCpack, bayesm, msm
testthat (>= 2.1.0), knitr, rmarkdown, survival
klaR (>= 0.6-13), knitr, rmarkdown, viridisLite (>= 0.2.0)
klaR (>= 0.6-13), knitr, rmarkdown, viridisLite (>= 0.4.0)
knitr, rmarkdown, viridisLite (>= 0.4.0)
knitr, lme4, magrittr, rmarkdown, testthat
odesolve, R.matlab, quadprog, DierckxSpline, nlme
knitr, testthat, rmarkdown, lars, ranger, stabs, flare, doMC,
parallel
knitr, testthat, glmnet, lars, ranger, stabs, flare, rARPACK,
RSpectra, rmarkdown, gtools, doMC, parallel
knitr, randomForestSRC, SIS, glmnet, ncvreg, parallel,
foreach, utils
knitr, randomForestSRC, SIS, glmnet, ncvreg, utils, pkgdown
MGDrivE, knitr, rmarkdown, markdown, ggplot2
ggplot2, plyr, reshape2, knitr, testthat (>= 3.0.0)
testthat (>= 3.0.0), knitr, rmarkdown, withr
knitr, rmarkdown, foreach, parallel, doParallel
knitr, rmarkdown, Amelia, exactRankTests, mice, miceadds
knitr, rmarkdown, Amelia, mice, miceadds
gplots, Amelia, knitr, rmarkdown, exactRankTests
gplots, Amelia, knitr, rmarkdown, exactRankTests, foreach,
parallel, doParallel
raster (>= 2.5.8), sp (>= 1.2.3), knitr, rmarkdown
minfi, BiocStyle, microbenchmark, GEOquery, knitr, rmarkdown
minfi, microbenchmark, GEOquery, knitr, BiocStyle, rmarkdown
minfi, microbenchmark, GEOquery, knitr, BiocStyle, rmarkdown,
wateRmelon, IlluminaHumanMethylation450kmanifest
minfi, microbenchmark, GEOquery, knitr, BiocStyle, rmarkdown,
IlluminaHumanMethylation450kmanifest
minfi, microbenchmark, GEOquery, knitr, rmarkdown,
IlluminaHumanMethylation450kmanifest
testthat (>= 2.1.0), covr, knitr, rmarkdown, ggplot2 (>=
3.3.2), tidygraph (>= 1.2.0), ggraph (>= 2.0.3), ggforce,
spelling
testthat (>= 2.1.0), covr, knitr, rmarkdown, ggplot2 (>=
3.3.2), ggforce, spelling, cowplot, reshape2, dplyr
rmarkdown, knitr, prettydoc, testthat (>= 3.0.0)
knitr, rmarkdown, testthat, foreign, nnet, magrittr, ggplot2,
scales
knitr, rmarkdown, testthat, nnet, magrittr, ggplot2, scales
knitr, rmarkdown, covr, testthat, rgdal, ggplot2, dplyr
knitr, rmarkdown, png, grid, testthat, covr
spelling, knitr, rmarkdown, png, grid, testthat, httptest,
sf(>= 0.6), leaflet, shiny, mapview (>= 2.3.0), mapedit (>=
0.4.1)
testthat, spelling, knitr, rmarkdown, png, grid, httptest,
sf(>= 0.6), leaflet, shiny, mapview (>= 2.3.0), mapedit (>=
0.4.1)
testthat, spelling, knitr, rmarkdown, png, grid, httptest,
rgdal, gWidgets (>= 0.0-54), gWidgetsRGtk2
testthat, spelling, knitr, rmarkdown, png, grid, httptest,
geojsonlint, leaflet, shiny, shinydashboard, shinyFiles,
shinyalert, shinyjs, rappdirs, leafem (>= 0.1.3), mapedit (>=
0.6.0), rgdal, magrittr, formatR
dplyr, DT, formatR, geojsonlint, ggplot2, grid, httptest,
knitr, leafem (>= 0.1.3), leaflet, magrittr, mapedit (>=
0.6.0), png, rappdirs, rgdal, rmarkdown, shiny, shinyalert,
shinydashboard, shinyFiles (>= 0.9.0), shinyjs, spelling,
testthat, tibble, tidyr, xtable
dplyr, DT, formatR, geojsonlint, ggplot2, grid, httptest,
knitr, leafem (>= 0.1.3), leaflet, magrittr, mapedit (>=
0.6.0), png, rappdirs, rgdal, rmarkdown, shiny, shinyalert,
shinydashboard, shinyFiles (>= 0.9.0), shinyjs, spelling,
testthat, tibble, tibbletime, tidyr, qpdf, xtable
dplyr, DT, formatR, geojsonlint, ggplot2, grid, httptest,
knitr, leafem (>= 0.1.3), leaflet, magrittr, mapedit (>=
0.6.0), png, rappdirs, rgdal, rmarkdown, shiny, shinyalert (>=
3.0.0), shinydashboard, shinyFiles (>= 0.9.0), shinyjs,
spelling, testthat, tibble, tibbletime, tidyr, qpdf, xtable
smoof, testthat, knitr, rmarkdown, irace
smoof, scatterplot3d, MASS, grDevices, irace, testthat,
knitr, rmarkdown, emoa, ggplot2, reshape2
smoof, scatterplot3d, MASS, grDevices, irace, testthat,
knitr, rmarkdown, emoa, ggplot2, reshape2, pkgdown
annotate, bigparallelr, bigstatsr, clValid, ComplexHeatmap,
fpc, ggplot2, ggpmisc, ggthemes, gridExtra, irlba, knitr, MASS,
rmarkdown, testthat, viridis
annotate, bigparallelr, bigstatsr, future.apply, scatterpie,
clValid, ComplexHeatmap, fpc, ggplot2, ggpmisc, ggthemes,
gridExtra, irlba, knitr, MASS, rmarkdown, testthat, viridis,
spelling
annotate, bigparallelr, bigstatsr, future.apply, scatterpie,
clValid, ComplexHeatmap, fpc, ggplot2, ggpmisc, ggthemes,
gridExtra, irlba, knitr, MASS, rmarkdown, testthat, viridis,
spelling, VennDiagram, grid
knitr, rmarkdown, matrixcalc, markovchain, matlib
spam, Matrix, oro.dicom, oro.nifti, mritc, ROCR, RANN, rgl,
fields
fields, pracma, nnet, rgl, betareg, coda, parallel, snowfall
coda, fields, mritc, nnet, parallel, pracma, rgl, snowfall
oro.dicom, oro.nifti, mritc, ROCR, RANN, rgl, fields
Synth, DEoptim, rgenoud, DEoptimR, GenSA, GA, soma, cmaes,
Rmalschains, NMOF, nloptr, hydroPSO, pso, optimx, knitr,
rmarkdown
Synth, DEoptim, rgenoud, DEoptimR, GenSA, GA, soma, cmaes,
Rmalschains, NMOF, nloptr, hydroPSO, pso, LowRankQP, kernlab,
reshape, knitr, rmarkdown
boot, broom, crayon, devtools, DT, fmsb, ggrepel, gridExtra,
kableExtra, knitr, MASS, openxlsx, purrr, r4ss, readxl,
reshape2, rfishbase, rmarkdown, shiny, testthat, tidyr
boot, broom, covr, crayon, devtools, DT, fmsb, ggrepel,
gridExtra, kableExtra, knitr, MASS, openxlsx, purrr, r4ss,
readxl, reshape2, rfishbase, rmarkdown, shiny, testthat, tidyr
boot, broom, covr, crayon, devtools, DT, fmsb, ggrepel,
gridExtra, kableExtra, knitr, MASS, mvtnorm, openxlsx, purrr,
r4ss, readxl, reshape2, rfishbase, rmarkdown, shiny, testthat,
tidyr
boot, broom, covr, crayon, devtools, DT, fmsb, ggrepel,
gridExtra, kableExtra, knitr, MASS, mvtnorm, openxlsx, r4ss,
readxl, reshape2, rfishbase, rmarkdown, shiny, testthat, tidyr
boot, broom, covr, crayon, devtools, DT, fmsb, kableExtra,
knitr, MASS, mvtnorm, openxlsx, r4ss, readxl, reshape2,
rfishbase, rmarkdown, shiny, testthat, tidyr, TMB, usethis
animation, KernSmooth, rgl, plotrix, aplpack, ggplot2,
iplots, sna
animation, KernSmooth, rgl, plotrix, ggplot2 (>= 0.9), sna
animation, KernSmooth, rgl, plotrix, aplpack, ggplot2 (>=
0.9), iplots, sna
RUnit, RNMImport, doParallel, doSNOW, snow, foreach
cartography, knitr, rmarkdown, ineq, png, reshape2
ggplot2 (>= 3.0.0), reshape2 (>= 1.4.3), testthat, covr,
knitr, rmarkdown
ggplot2 (>= 3.0.0), reshape2 (>= 1.4.3), testthat, vdiffr (>=
0.3.0), covr, knitr, rmarkdown
mvtnorm, mclust, lattice, flexclust, nlme, RLRsim, multcomp,
ape, MASS, sem, KernSmooth, scatterplot3d
gRbase, hash, Biobase, VGAM, MASS, pcalg, survival, methods
hash, methods, stats, Biobase, gRbase, VGAM, MASS, pcalg,
survival
C50, doParallel, gbm, glmnet, kableExtra, knitr, MASS, nnet,
pls, randomForest, rmarkdown, rms, testthat
C50, doParallel, gbm, glmnet, kableExtra, kknn, knitr, MASS,
nnet, pls, randomForest, rmarkdown, rms, testthat, xgboost
adabag, C50, doParallel, e1071, earth, gbm, glmnet,
kableExtra, kknn, knitr, mda, MASS, mboost, nnet, partykit,
pls, randomForest, ranger, rmarkdown, rms, rpart, testthat,
tree, xgboost
adabag, bartMachine, C50, doParallel, e1071, earth, gbm,
glmnet, kableExtra, kknn, knitr, lars, mda, MASS, mboost, nnet,
partykit, pls, randomForest, ranger, rmarkdown, rms, rpart,
testthat, tree, xgboost
adabag, BART, bartMachine, C50, doParallel, e1071, earth,
gbm, glmnet, kableExtra, kknn, knitr, lars, mda, MASS, mboost,
nnet, partykit, pls, randomForest, ranger, rmarkdown, rms,
rpart, testthat, tree, xgboost
adabag, BART, bartMachine, C50, doParallel, e1071, earth,
gbm, glmnet, Hmisc, kableExtra, kknn, knitr, lars, mda, MASS,
mboost, nnet, partykit, pls, randomForest, ranger, rmarkdown,
rms, rpart, testthat, tree, xgboost
adabag, BART, bartMachine, C50, doParallel, e1071, earth,
gbm, glmnet, gridExtra, Hmisc, kableExtra, kknn, knitr, lars,
mda, MASS, mboost, nnet, partykit, pls, randomForest, ranger,
rmarkdown, rms, rpart, testthat, tree, xgboost
adabag, BART, bartMachine, C50, cluster, doParallel, e1071,
earth, elasticnet, gbm, glmnet, gridExtra, Hmisc, kableExtra,
kknn, knitr, lars, MASS, mboost, mda, nnet, partykit, pls,
randomForest, ranger, rmarkdown, rms, rpart, testthat, tree,
xgboost
adabag, BART, bartMachine, C50, cluster, doParallel, e1071,
earth, elasticnet, gbm, glmnet, gridExtra, Hmisc, kableExtra,
kknn, knitr, lars, MASS, mboost, mda, partykit, pls,
randomForest, ranger, rmarkdown, rms, rpart, testthat, tree,
xgboost
adabag, BART, bartMachine, C50, cluster, doParallel, e1071,
earth, elasticnet, gbm, glmnet, gridExtra, Hmisc, kableExtra,
kknn, knitr, lars, MASS, mboost, mda, partykit, pls,
randomForest, randomForestSRC, ranger, rmarkdown, rms, rpart,
testthat, tree, xgboost
adabag, BART, bartMachine, C50, cluster, doParallel, e1071,
earth, elasticnet, gbm, glmnet, gridExtra, Hmisc, kableExtra,
kknn, knitr, lars, MASS, mboost, mda, parsnip, partykit, pls,
randomForest, randomForestSRC, ranger, rmarkdown, rms, rpart,
testthat, tree, xgboost
adabag, BART, bartMachine, C50, cluster, doParallel, e1071,
earth, elasticnet, generics, gbm, glmnet, gridExtra, Hmisc,
kableExtra, kknn, knitr, lars, MASS, mboost, mda,
ParBayesianOptimization, parsnip, partykit, pls, pso,
randomForest, randomForestSRC, ranger, rBayesianOptimization,
rmarkdown, rms, rpart, testthat, tree, xgboost
adabag, BART, bartMachine, C50, censored, cluster,
doParallel, e1071, earth, elasticnet, generics, gbm, glmnet,
gridExtra, Hmisc, kableExtra, kknn, knitr, lars, MASS, mboost,
mda, ParBayesianOptimization, parsnip, partykit, pls, pso,
randomForest, randomForestSRC, ranger, rBayesianOptimization,
rmarkdown, rms, rpart, testthat, tree, xgboost
gganimate, gifski, knitr, plotly, png, rmarkdown, testthat
(>= 3.0.0), transformr
markdown, knitr, rmarkdown, testthat (>= 3.0.0), readr
testthat, knitr, rmarkdown, furniture, margins
testthat, knitr, rmarkdown, margins, betareg
knitr, kableExtra, gridExtra, reshape2, zoo
cem, optmatch, Matching, WhatIf, nnet, rpart, mgcv
cem, optmatch, Matching, nnet, rpart, mgcv, WhatIf
cem, optmatch, Matching, nnet, rpart, mgcv, WhatIf, R.rsp
cem, nnet, optmatch, rpart, mgcv, WhatIf, R.rsp, testthat
cem, nnet, optmatch, rpart, mgcv, WhatIf, R.rsp, testthat,
rgenoud
optmatch, Matching, rgenoud, nnet, rpart, mgcv, CBPS, dbarts,
randomForest, cobalt (>= 4.2.3), boot, lmtest, sandwich (>=
2.5-1), survival, RcppProgress (>= 0.4.2), knitr, rmarkdown
optmatch, Matching, rgenoud, cem (>= 1.1.27), nnet, rpart,
mgcv, CBPS (>= 0.17), dbarts, randomForest, cobalt (>= 4.2.3),
boot, lmtest, sandwich (>= 2.5-1), survival, RcppProgress (>=
0.4.2), knitr, rmarkdown
optmatch, Matching, rgenoud, nnet, rpart, mgcv, CBPS (>=
0.17), dbarts, randomForest, cobalt (>= 4.2.3), boot, lmtest,
sandwich (>= 2.5-1), survival, RcppProgress (>= 0.4.2), knitr,
rmarkdown
optmatch, Matching, rgenoud, nnet, rpart, mgcv, CBPS (>=
0.17), dbarts, randomForest, glmnet (>= 4.0), gbm (>= 2.1.7),
cobalt (>= 4.2.3), boot, lmtest, sandwich (>= 2.5-1), survival,
RcppProgress (>= 0.4.2), Rglpk, Rsymphony, gurobi, knitr,
rmarkdown
optmatch, Matching, rgenoud, nnet, rpart, mgcv, CBPS (>=
0.17), dbarts, randomForest (>= 4.7-1), glmnet (>= 4.0), gbm
(>= 2.1.7), cobalt (>= 4.2.3), boot, lmtest, sandwich (>=
2.5-1), survival, RcppProgress (>= 0.4.2), Rglpk, Rsymphony,
gurobi, knitr, rmarkdown
optmatch (>= 0.10.0), Matching, rgenoud, nnet, rpart, mgcv,
CBPS (>= 0.17), dbarts, randomForest (>= 4.7-1), glmnet (>=
4.0), gbm (>= 2.1.7), cobalt (>= 4.2.3), boot, lmtest, sandwich
(>= 2.5-1), survival, RcppProgress (>= 0.4.2), Rglpk,
Rsymphony, gurobi, knitr, rmarkdown
optmatch (>= 0.10.0), Matching, rgenoud, quickmatch (>=
0.2.1), nnet, rpart, mgcv, CBPS (>= 0.17), dbarts, randomForest
(>= 4.7-1), glmnet (>= 4.0), gbm (>= 2.1.7), cobalt (>= 4.2.3),
boot, marginaleffects (>= 0.8.0), sandwich (>= 2.5-1),
survival, RcppProgress (>= 0.4.2), Rglpk, Rsymphony, gurobi,
knitr, rmarkdown
knitr, qpdf, rmarkdown, spelling, testthat
fUnitRoots, microbenchmark, boot, MASS, knitr, rmarkdown
knitr, markdown, rmarkdown, roxygen2, testthat (>= 2.1.0),
zoo
ISOcodes, knitr, lubridate, maps, testthat
knitr, maps, markdown, readr, rmarkdown, testthat
knitr, markdown, readr, rmarkdown, testthat
akima, car, classInt, lattice, locfit, maptools, mlogit,
quantreg, RColorBrewer, SparseM, spatstat, spdep
car, classInt, maptools, mlogit, RColorBrewer, spatstat,
spdep
car, classInt, mlogit, RColorBrewer, spatstat, spdep
flextable, knitr, officer, rmarkdown, pander
knitr, rmarkdown, formatR, TxDb.Hsapiens.UCSC.hg19.knownGene,
org.Hs.eg.db
knitr, rmarkdown, testthat, covr, pedigree
knitr, shiny, DT, bs4Dash, sortable, rgl, Boov
BiocStyle, knitr, rmarkdown, RUnit, BiocGenerics
BiocStyle, knitr, RUnit, BiocGenerics, snplist
BiocStyle, knitr, RUnit, BiocGenerics, snplist, magick
MASS, GEOquery, pcaPP, affy, hgu133plus2.db, doMC, doSMP,
ellipse, impute
doMC, doSNOW, FactoMineR, matrixStats, gdata, gtools,
survival
doMC, doSMP, FactoMineR, samr, matrixStats, gdata, gtools
doMC, doSNOW, FactoMineR, samr, matrixStats, gdata, gtools
testthat, knitr, rmarkdown, ggplot2, shinystan, vdiffr
R2WinBUGS, coda, BRugs, lattice, rjags, lme4
R2WinBUGS, BRugs, rjags, coda, lattice, lme4
knitr, dplyr, rmarkdown, testthat (>= 3.0.0)
testthat (>= 3.0.0), ggfortify, knitr, rmarkdown
knitr, propr, cluster, dirmult, vegan, rmarkdown, tidyverse,
kableExtra
knitr, vegan, rmarkdown, tidyverse, kableExtra
knitr, rmarkdown, testthat (>= 3.0.0), ggplot2, data.table,
callr, httr, readr, withr
knitr, rmarkdown, testthat (>= 3.0.0), ggplot2, data.table,
callr, httr, readr, withr, plumber
knitr, rmarkdown, testthat (>= 3.0.0), ggplot2, data.table
BSgenome.Hsapiens.UCSC.hg38, BSgenome.Hsapiens.UCSC.hg19,
BSgenome.Mmusculus.UCSC.mm10, knitr, rmarkdown
openssl, knitr, rmarkdown, testthat, blastula, emayili
clustree, fmsb, gam, karyoploteR, knitr, plotly, regioneR,
rmarkdown, testthat
knitr, rmarkdown, testthat, animation, magrittr
knitr, rmarkdown, testthat, covr, ggplot2, dplyr, magrittr,
spelling
gWidgets (>= 0.0-54), gWidgetsRGtk2 (>= 0.0-86), splancs (>=
2.01-40), knitr, rmarkdown, testthat
gWidgets (>= 0.0-54), gWidgetsRGtk2 (>= 0.0-83), splancs (>=
2.01-38), knitr, rmarkdown, testthat
EMMREML, BGLR, MASS, doMPI, doRNG, compiler, foreach, sommer,
vcfR, jsonlite, rrBLUP, biomaRt, Matrix, doParallel
EMMREML, BGLR, MASS, doMPI, doRNG, compiler, foreach, sommer,
vcfR, jsonlite, rrBLUP, biomaRt, Matrix, doParallel,
RColorBrewer, optiSel, alstructure, NAM, gplots, phylogram
EMMREML, BGLR, MASS, doMPI, doRNG, compiler, foreach, sommer,
vcfR, jsonlite, rrBLUP, biomaRt, Matrix, doParallel,
RColorBrewer, optiSel, alstructure, NAM, gplots, phylogram,
cPCG
cluster, clustMD, geometry, knitr, rmarkdown
cluster, clustMD, geometry, knitr, rmarkdown, snow
cluster, clustMD, geometry, knitr, parallel, rmarkdown
cluster, clustMD (>= 1.2.1), geometry (>= 0.4.0), knitr,
rmarkdown, snow
cluster (>= 1.4.0), clustMD (>= 1.2.1), geometry (>= 0.4.0),
knitr, rmarkdown, snow
testthat (>= 2.1.0), knitr, markdown, rmarkdown, aricode,
ggplot2, tidytext, reshape2
party, rpart, glmnet, rms, randomForest, randomForestSRC
knitr, testthat, mockery, datasets, tibble, rmarkdown,
DSMolgenisArmadillo
devtools, knitr, rmarkdown, testthat, covr
devtools, knitr, rmarkdown, testthat, covr, roxygen2
testthat, survey, nycflights13, RSQLite, dplyr, gdata
assertthat, testthat, survey, nycflights13, RSQLite, dbplyr,
dplyr, gdata, callr, devtools, DBItest
assertthat, testthat, survey, nycflights13, RSQLite, dbplyr,
dplyr, gdata, callr, devtools, DBItest, bit64
knitr, rmarkdown, testthat, dplyr, ggplot2
lifecontingencies, MortalityLaws, knitr, tidyverse,
rmarkdown, reshape2
rhdf5, tcltk, relimp, knitr, testthat (>= 3.0.0), rmarkdown
testthat, knitr, shinytest, mockery, spelling
lme4, MASS, mgcv, nlme, nnet, spdep, survival
stats4, nlme, mgcv (>= 1.7.5), lme4 (>= 0.999375-16), gamm4,
MASS, nnet, survival, geepack
stats4, nlme, mgcv (>= 1.7.5), lme4 (>= 1.1.0), gamm4, MASS,
nnet, survival, geepack
nlme, mgcv (>= 1.7.5), lme4 (>= 1.1.0), gamm4, MASS, nnet,
survival, geepack
lme4 (>= 1.1.0), nlme, mgcv (>= 1.7.5), gamm4, MASS, nnet,
survival, geepack
stats4, nlme, mgcv (>= 1.7.5), lme4 (>= 0.999375-16), gamm4,
MASS, nnet, spdep, survival, unmarked, glmmML
stats4, lme4, MASS, mgcv, gamm4, nlme (>= 3.1.99), nnet,
spdep, glmmML, unmarked
lme4 (>= 1.1.0), nlme, mgcv (>= 1.7.5), gamm4, MASS, nnet,
survival (>= 2.37.5), geepack
stats4, nlme, mgcv (>= 1.7.5), lme4 (>= 0.999375-16), gamm4,
MASS, nnet, spdep, survival, unmarked, glmmML, coxme
stats4, nlme, mgcv (>= 1.7.5), lme4 (>= 0.999375-16), gamm4,
MASS, nnet, survival
stats4, nlme, mgcv (>= 1.7.5), lme4 (>= 0.999375-16), gamm4,
MASS, nnet, spdep, survival, unmarked, glmmML, coxme, pscl
stats4, nlme, mgcv (>= 1.7.5), lme4 (>= 0.999375-16), gamm4,
MASS, nnet, spdep, survival, coxme
knitr, markdown, mclust, testthat, gridExtra
readxl, readr, magic, Jmisc, functional, cowplot, powerplus,
reshape2, sjmisc, stringr, knitr, rmarkdown, bookdown,
kableExtra, neldermead, magrittr
testthat, knitr, rmarkdown, MCMCpack, ggplot2, matrixStats,
plotrix
covr, Biobase, GEOquery, utils, sessioninfo, knitr,
rmarkdown, testthat
Biobase, covr (>= 3.3.2), GEOquery, limma, roxygen2 (>=
7.0.2), testthat (>= 2.2.1)
roxygen2 (>= 7.0.2), testthat (>= 2.2.1), covr (>= 3.3.2),
Biobase, GEOquery, limma
roxygen2 (>= 7.2.0), testthat (>= 2.2.1), covr (>= 3.3.2),
Biobase, GEOquery, limma
knitr, rmarkdown, bestglm, car, nlme, rms
knitr, rmarkdown, ggplot2, plyr, rvest, stringr, xml2
graphics, knitr, lattice, rmarkdown, testthat (>= 2.1.0)
knitr, testthat, BiocStyle, graphite, NFPdata
knitr, testthat, graphite, NFPdata, rmarkdown
dplyr, ggplot2, lme4, MASS, ModelMetrics, lmtest, testthat
(>= 2.1.0), covr, knitr, rmarkdown
dplyr, ggplot2, lme4, MASS, ModelMetrics, lmtest, rmarkdown,
scales, ggrepel, lubridate, tidyr, forcats, knitr
dplyr, ggplot2, lme4, MASS, ModelMetrics, lmtest, rmarkdown,
scales, ggrepel, lubridate, tidyr, forcats, knitr, janitor,
stringi
dplyr, caret, e1071, readr, lattice, magrittr, varhandle,
rsample, ggplot2, lme4, MASS, ModelMetrics, lmtest, rmarkdown,
scales, ggrepel, lubridate, tidyr, forcats, knitr, janitor,
stringi, synthpop
covr, lintr, testthat (>= 3.0.0), rmarkdown, knitr, mockery,
withr, spelling
knitr, utils, rmarkdown, htmltools, testthat (>= 3.0.0)
testthat, covr, knitr, rmarkdown, lintr, classInt, rasterVis
testthat, covr, knitr, rmarkdown, lintr, landscapetools
testthat, covr, captioner, knitr, rmarkdown, lintr,
landscapetools, igraph
RcppOctave (>= 0.8.12), Biobase, fastICA, doMPI, bigmemory
(>= 4.2), synchronicity, corpcor, xtable, devtools, knitr,
RUnit, mail
RcppOctave (>= 0.11), fastICA, doMPI, bigmemory (>= 4.2),
synchronicity, corpcor, xtable, devtools, knitr, bibtex, RUnit,
mail, Biobase
fastICA, doMPI, bigmemory (>= 4.2), synchronicity(>= 1.3.2),
corpcor, xtable, devtools, knitr, bibtex, RUnit, mail, Biobase
fastICA, doMPI, bigmemory (>= 4.2), synchronicity(>= 1.3.2),
corpcor, xtable, devtools, knitr, bibtex, RUnit, mail
fastICA, doMPI, bigmemory (>= 4.2), synchronicity(>= 1.3.2),
corpcor, xtable, devtools, knitr, RUnit, mail
Biobase, RColorBrewer, fastICA, bigmemory, doMC
Biobase, RColorBrewer, fastICA, bigmemory, doMC,
synchronicity
Biobase, RColorBrewer, fastICA, bigmemory, doMC,
synchronicity, corpcor
Biobase, RColorBrewer, fastICA, bigmemory, doMC,
synchronicity, corpcor, xtable
Biobase, RColorBrewer, fastICA, bigmemory, doMC,
synchronicity, corpcor, xtable, parallel
MASS, multicore, parallel, quadprog, RUnit, snow
MASS, RUnit, datetimeutils, quadprog, readxl
MASS, PMwR, RUnit, datetimeutils, quadprog, readxl
MASS, PMwR, RUnit, Rglpk, datetimeutils, quadprog, readxl,
tinytest
MASS, PMwR, RUnit, Rglpk, datetimeutils, openxlsx, quadprog,
readxl, tinytest
testthat, knitr, rmarkdown, ggplot2, tibble, covr, htmltools
testthat, knitr, formatR, mime, rmarkdown, ggplot2, tibble,
covr, htmltools
testthat, knitr, formatR, mime, rmarkdown, ggplot2, tibble,
covr, htmltools, spelling
testthat, knitr, rmarkdown, ggplot2, tibble, covr
testthat, knitr, ggplot2, future, data.tree, xpose,
lubridate, pmxTools, Hmisc, rsample, renv, desc, purrr, digest,
covr, devtools, roxygen2
testthat, knitr, ggplot2, data.tree, xpose, lubridate,
pmxTools, Hmisc, rsample, renv, desc, purrr, digest, covr,
devtools, roxygen2, xfun
testthat, knitr, rmarkdown, mice, missForest, ISOpureR
testthat (>= 0.8.1), knitr (>= 1.6), rmarkdown, ggplot2, plyr
zoo, SPEI, knitr, ggplot2, testthat, bookdown, rmarkdown
zoo, SPEI, WASP, knitr, ggplot2, synthesis, testthat,
bookdown, rmarkdown
foreach, parallel, doParallel, itertools, microbenchmark
testthat (>= 0.10.0), roxygen2, timeSeries
broom, furrr, knitr, rmarkdown, spelling, testthat (>= 2.1.0)
fastshp, knitr, magrittr, microbenchmark, rmarkdown,
SpaDES.core, testthat
fastshp, knitr, magrittr, microbenchmark, rmarkdown, sf,
SpaDES.core, testthat
testthat, knitr, rmarkdown, pander, igraph, utils
testthat, knitr, rmarkdown, pander, igraph, utils, dplyr
caret, neuralnet, RSNNS, knitr, rmarkdown
h2o, neural, RSNNS, nnet, neuralnet, e1071
h2o, neural, RSNNS, nnet, neuralnet, plotly, e1071
h2o, RSNNS, nnet, neuralnet, plotly, e1071
rmarkdown, covr, testthat (>= 3.0.0), knitr
knitr, rmarkdown, plyr, reshape2, ggplot2, scales, MuMIn, rsq
devtools, ggplot2, knitr, plyr, scales, testit, testthat,
xtable
RUnit, knitr, BiocStyle, rmarkdown, BiocGenerics
testthat (>= 2.1.0), knitr, rmarkdown, ggplot2, patchwork,
covr
testthat (>= 3.0.0), covr, knitr, rmarkdown
covr, knitr, parallel, rmarkdown, testthat
knitr, rmarkdown, keras, dummies, rlist, pROC, devtools,
knitcitations, testthat, xts
knitr, rmarkdown, tsne, umap, HDclust, dbscan, flexclust,
mclust
extrafont, knitr, rmarkdown, testthat (>= 3.0.0), scales,
markdown, vdiffr
clusterProfiler, extrafont, systemfonts, ggplotify, knitr,
markdown, msigdbr, openssl, ordinal, pheatmap, rmarkdown,
scales, testthat (>= 3.0.0), vdiffr
clusterProfiler, extrafont, FSA, ggplotify, here, knitr,
markdown, msigdbr, openssl, ordinal, pheatmap, rmarkdown,
scales, systemfonts, testthat (>= 3.0.0), umap, vdiffr
faviconPlease, ggplot2, opencpu, plotly, tinytest (>= 1.2.3),
ttdo (>= 0.0.6), UpSetR
faviconPlease, ggplot2, opencpu, tinytest (>= 1.2.3), ttdo
(>= 0.0.6), UpSetR
rmarkdown, knitr, testthat (>= 2.0.0), mvtnorm, tidybayes
rmarkdown, knitr, testthat (>= 2.0.0), mvtnorm
rmarkdown, knitr, testthat (>= 2.0.0), mvtnorm, vdiffr
rmarkdown, knitr, testthat (>= 2.0.0), mvtnorm, vdiffr,
cmdstanr (>= 0.4.0)
AER, haven, ivtools, knitr, lfe, rmarkdown, testthat (>=
3.0.0)
haven, knitr, lfe, rmarkdown, testthat (>= 3.0.0)
testthat, randomForest, rpart, RWeka, farff, mboost, knitr,
rmarkdown, R.rsp
testthat, mlr (>= 2.15), ParamHelpers (>= 1.10),
randomForest, rpart, RWeka, xml2, farff, knitr, rmarkdown,
R.rsp, lintr (>= 1.0.1), rex
testthat (>= 3.0.0), mlr (>= 2.15), ParamHelpers (>= 1.10),
randomForest, rpart, RWeka, xml2, farff, knitr, rmarkdown,
R.rsp, rex
testthat, xml2, randomForest, rpart, RWeka, farff, knitr,
rmarkdown, R.rsp
testthat, xml2, randomForest, rpart, RWeka, farff, knitr,
rmarkdown, R.rsp, lintr (>= 1.0.1)
testthat, mlr (>= 2.15), randomForest, rpart, RWeka, xml2,
farff, knitr, rmarkdown, R.rsp, lintr (>= 1.0.1), rex
mvtnorm, numDeriv, roxygen2 (>= 3.1), devtools, Rmpi, rpf (>=
0.45), snowfall, lme4
mvtnorm, numDeriv, roxygen2 (>= 3.1), devtools, Rmpi, rpf (>=
0.45), snowfall, lme4, car
mvtnorm, numDeriv, roxygen2 (>= 6.1), Rmpi, rpf (>= 0.45),
snowfall, lme4
mvtnorm, numDeriv, roxygen2 (>= 6.1), Rmpi, rpf (>= 0.45),
snowfall, lme4, covr, testthat
mvtnorm, numDeriv, roxygen2 (>= 6.1), Rmpi, rpf (>= 0.45),
snowfall, lme4, covr, testthat, umx, ifaTools
mvtnorm, numDeriv, roxygen2 (>= 6.1), rpf (>= 0.45),
snowfall, lme4, covr, testthat, umx, ifaTools
Matrix, mvtnorm, numDeriv, roxygen2 (>= 3.1), Rmpi, rpf (>=
0.36), snowfall
mvtnorm, numDeriv, roxygen2 (>= 6.1), rpf (>= 0.45),
snowfall, lme4, covr, testthat, umx, ifaTools, knitr, markdown,
rmarkdown, reshape2, ggplot2
mvtnorm, numDeriv, roxygen2 (>= 3.1), Rmpi, rpf (>= 0.45),
snowfall, lme4
knitr, rmarkdown, testthat (>= 3.0.0), config, shinyjs,
shinythemes, shinyBS, shinyWidgets, ggplot2, plotly,
data.table, DT, curl, rdrop2
knitr, rmarkdown, testthat (>= 3.0.0), config, shinyjs,
shinythemes, shinyBS, shinyWidgets, ggplot2, plotly,
data.table, DT, curl, rdrop2, mongolite, loggit
ggplot2 (>= 0.9.0), sp, colorspace, maptools
ape, bazar, ggplot2, knitr, reshape2, rmarkdown, testthat
ape, ggplot2, knitr, rmarkdown, testthat
knitr, gridExtra, rmarkdown, mbgraphic, languageR
genealogicalSorting (>= 0.92), phybase (>= 1.3.1), Rmpi (>=
0.6-5), xtermStyle (>= 2.2-4)
doParallel (>= 1.0.11), tidyverse, goftest, faraway, ordinal,
rms, testthat, mgcv, PResiduals, knitr, rmarkdown, truncdist
faraway, ordinal, rms, testthat, mgcv, PResiduals, knitr,
rmarkdown
testthat, knitr, rmarkdown, matchingMarkets (>= 1.0.1)
PBSmapping, PBSddesolve, odesolve, BRugs, KernSmooth
PBSmapping, PBSddesolve, deSolve, BRugs, KernSmooth
PBSmapping, PBSddesolve, deSolve, KernSmooth, XML
optmatch, testthat, knitr, rmarkdown, R.rsp
testthat, knitr, rmarkdown, abind, ggtree, cowplot, covr,
mvSLOUCH, BiocManager
testthat, knitr, rmarkdown, abind, ggtree, covr
testthat, knitr, rmarkdown, abind, ggtree, cowplot, covr
data.table, drc, dplyr, knitr, RDML, readxl, rmarkdown,
xtable
data.table, dplyr, knitr, RDML, readxl, rmarkdown, xtable
DT, FFTrees, knitr, RDML, randomForest, readxl, rmarkdown,
spelling, testthat, xtable
DT, FFTrees, knitr, RDML, randomForest, readxl, rmarkdown,
spelling, testthat, xtable, future, listenv
DT, future, knitr, listenv, RDML, readxl, rmarkdown,
shinycssloaders, spelling, testthat, xtable
testthat, inline, utils, devtools, htmltools
diagram, wordcloud, microbenchmark, knitr, rmarkdown
diagram, wordcloud, microbenchmark, XML, knitr, rmarkdown
diagram, wordcloud, microbenchmark, XML, knitr, rmarkdown,
pander
diagram, wordcloud, microbenchmark, XML, httr, RCurl, knitr,
rmarkdown, pander
knitr, readxl, rmarkdown, RODBC, testthat,
knitr, readxl, rmarkdown, testthat, withr
zoo, xts, highfrequency, TTR, timeDate, quantmod
covr, cowplot, ggplot2, knitr, labeling, pander, pmxTools,
rmarkdown, spelling, testthat, tidyverse, units, withr
cowplot, ggplot2, knitr, rmarkdown, testthat
covr, cowplot, ggplot2, knitr, rmarkdown, testthat
covr, cowplot, ggplot2, knitr, rmarkdown, testthat, tibble
testthat (>= 3.0.0), lifecycle, knitr, rmarkdown, ggplot2
knitr, rmarkdown, testthat, covr, pkgdown, biomformat,
phyloseq, spelling
knitr, rmarkdown, testthat, covr, pkgdown, biomformat,
phyloseq, spelling, factoextra, Wrench
knitr, rmarkdown, GGally, testthat, covr, pkgdown
knitr, rmarkdown, testthat, covr, pkgdown
knitr, rmarkdown, testthat, covr, pkgdown, biomformat,
phyloseq
chemometrics, MASS, mixOmics, mvabund, pls, plsgenomics,
robustbase, SensoMineR
xtable, graphics, knitr, rmarkdown, car, e1071, multcomp, pwr
xtable, graphics, knitr, rmarkdown, car, e1071, multcomp,
pwr, NSM3
testthat (>= 3.0.0), faux, knitr, rmarkdown
testthat, TreeSim (>= 2.2), Rmpfr, mvtnorm, lmtest, knitr,
rmarkdown, parallel, doParallel
testthat, TreeSim (>= 2.2), Rmpfr, mvtnorm, lmtest, knitr,
rmarkdown, parallel, doParallel, microbenchmark
testthat, Rmpfr, mvtnorm, lmtest, knitr, rmarkdown, parallel,
doParallel
testthat, usethis, Rmpfr, mvtnorm, lmtest, knitr, rmarkdown,
parallel, doParallel
testthat, roxygen2, knitr, eRm, data.table, prettydoc
testthat, roxygen2, knitr, eRm, data.table, prettydoc,
rmarkdown
knitr, gridExtra, GGally, ggplot2, RColorBrewer, roxygen2 (>=
3.0.0), PPtreeViz, rmarkdown
covr, devtools, ggplot2, knitr, rmarkdown, roxygen2,
testthat, tidyverse
DiagrammeRsvg, knitr, rmarkdown, rsvg, testthat, utils
DiagrammeRsvg, knitr, rmarkdown, rsvg, scales, testthat,
utils
testthat (>= 2.1.0), covr, spelling, knitr, rmarkdown
shiny, shinythemes, shinyWidgets, shinyjs, DT, knitr,
kableExtra, testthat (>= 2.1.0), dplyr, rmarkdown, pkgdown
shiny, shinythemes, shinyWidgets, shinyjs, DT, knitr,
kableExtra, testthat (>= 2.1.0), rmarkdown, dplyr, pkgdown
testthat, spelling, waveslim, knitr, rmarkdown
testthat, kableExtra, knitr, furrr, PowerUpR (>= 1.1.0)
furrr, here, kableExtra, knitr, PowerUpR (>= 1.1.0), testthat
knitr, lintr, rmarkdown, testthat (>= 2.1.0)
knitr, rmarkdown, Sleuth3, colorspace,multcomp,igraph,
scales,RColorBrewer,alr3,scagnostics
knitr, rmarkdown, Sleuth3, colorspace,multcomp,igraph,
scales,RColorBrewer,alr4,scagnostics
knitr, rmarkdown, xgboost, doParallel, testthat
mailR, testthat, shiny, DT, knitr, rmarkdown
mailR, testthat, shiny, DT, knitr, rmarkdown, tibble
akima, eaf, emoa, GGally, ggplot2, gridExtra, grid, irace (>=
2.1), lhs, plyr, reshape2, testthat
akima, covr, eaf, emoa, GGally, ggplot2, grid, gridExtra,
irace (>= 2.1), lhs, plyr, reshape2, testthat
interp, covr, eaf, emoa, GGally, ggplot2, grid, gridExtra,
irace (>= 2.1), lhs, plyr, reshape2, testthat
akima, eaf, emoa, GGally, ggplot2, gridExtra, irace (>=
1.0.7), lhs, plyr, reshape2, soobench, testthat
akima, eaf, emoa, GGally, ggplot2, gridExtra, irace (>=
1.0.7), lhs, plyr, reshape2, testthat
repmis, biomaRt, R.rsp, CascadeData, knitr, rmarkdown
animation, Biobase, c060, cluster, elasticnet, glmnet,
pixmap, biomaRt, CascadeData, repmis, knitr, R.rsp, spls,
rmarkdown
ggplot2 (>= 2.0), testthat, penaltyLearning
testthat, ggplot2, future.apply, future, knitr
testthat, ggplot2, future.apply, future, knitr, markdown
testthat, ggplot2 (>= 2.0), microbenchmark
PeakSegDP (>= 2016.08.06), ggplot2, testthat, data.table (>=
1.9.8)
testthat, knitr, devtools, reshape2, lattice
testthat, knitr, rmarkdown, devtools, reshape2, lattice
Hmisc, MASS, tseries, fBasics, fPortfolio, fExtremes, quadprog, sn, robustbase
Hmisc, MASS, tseries, fBasics, fPortfolio, fExtremes, quadprog, sn, robustbase, xts
Hmisc, MASS, tseries, quadprog, sn, robustbase, quantreg
Hmisc, MASS, tseries, quadprog, sn, robustbase, quantreg,
SparseM
Hmisc, MASS, tseries, quadprog, sn, robustbase, quantreg,
gplots, ff
Hmisc, MASS, quantmod, gamlss, gamlss.dist, robustbase,
quantreg, gplots
dygraphs, Hmisc, MASS, quantmod, gamlss, gamlss.dist,
robustbase, quantreg, gplots, testthat
dygraphs, Hmisc, MASS, quantmod, gamlss, gamlss.dist,
robustbase, quantreg, tinytest, ggplot2, RColorBrewer,
googleVis, plotly, gridExtra, ggpubr, RPESE, R.rsp, RobStatTM
R6, httptest, testthat, knitr, rmarkdown
lubridate, testthat, knitr, rmarkdown, dplyr, httr, jsonlite
ggplot2, e1071, randomForestSRC, xgboost, knitr
ggplot2, e1071, randomForestSRC, xgboost, knitr, rmarkdown
covr, DT, fs, knitr, lubridate, mockery, rmarkdown, spelling,
testthat, uuid, withr
combinat (>= 0.0.8), doParallel (>= 1.0.10), phytools (>=
0.5.38), Rphylopars (>= 0.2.9), testthat (>= 1.0.2), TreeSim
(>= 2.2), knitr, rmarkdown
combinat (>= 0.0.8), doParallel (>= 1.0.10), phytools (>=
0.5.38), testthat (>= 1.0.2), TreeSim (>= 2.2), knitr,
rmarkdown
RSQLite, DBI, data.table, e1071, keras, randomForest,
reticulate, rms
DBI, RPostgreSQL, shiny, testthat, tools, rpart,
randomForest, topicmodels
BiocStyle, BradleyTerry2, BradleyTerryScalable, Matrix.utils,
PLMIX, StatRank, covr, hyper2, kableExtra, knitr, lbfgs, gnm,
pmr, psychotree, rmarkdown, testthat, tibble
BiocStyle, BradleyTerry2, BradleyTerryScalable, Matrix.utils,
PLMIX, StatRank, covr, hyper2, kableExtra, knitr, lbfgs, gnm,
pmr, rmarkdown, testthat, tibble
BiocStyle, BradleyTerry2, BradleyTerryScalable, Matrix.utils,
PLMIX, StatRank, covr, hyper2, kableExtra, knitr, lbfgs, gnm,
pmr, rmarkdown, testthat
BiocStyle, BayesMallows, BradleyTerry2, BradleyTerryScalable,
Matrix.utils, PLMIX, ROlogit, StatRank, covr, hyper2,
kableExtra, knitr, lbfgs, gnm, pmr, rmarkdown, testthat
BiocStyle, BayesMallows, BradleyTerry2, PLMIX, ROlogit,
StatRank, bookdown, covr, hyper2, kableExtra, knitr, lbfgs,
gnm, pmr, rmarkdown, testthat
BiocStyle, BayesMallows, BradleyTerry2, PLMIX, ROlogit,
StatRank, bookdown, covr, hyper2, kableExtra, knitr, lbfgs,
gnm, pmr, prefmod, rmarkdown, survival, testthat
testthat, knitr, rmarkdown, viridisLite, sets, ellipse
testthat, knitr, rmarkdown, viridisLite, sets, ellipse,
freegroup, elliptic, rgl
rmarkdown, knitr, raster, sp, RStoolbox, testthat (>= 3.0.0)
rmarkdown, knitr, sp, RStoolbox, testthat (>= 3.0.0)
rmarkdown, knitr, sp, raster, RStoolbox, testthat (>= 3.0.0)
knitr, rmarkdown, ggplot2, testthat (>= 3.0.0)
AnnotationDbi, ape, circlize, cowplot, data.table,
doParallel, fda.usc, fgsea, ggrepel, ggridges, ggseqlogo, grid,
gridExtra, harmony, igraph, IRanges, limma, keras, methods,
msigdbr, org.Mm.eg.db, pheatmap, phytools, purrr, scales,
SummarizedExperiment, stringdist, tensorflow, vegan, testthat
(>= 3.0.0)
AnnotationDbi, ape, circlize, cowplot, data.table,
doParallel, fda.usc, fgsea, ggalluvial, ggtree, ggrepel,
ggridges, ggseqlogo, grid, gridExtra, harmony, igraph, IRanges,
limma, keras, methods, msigdbr, org.Mm.eg.db, pheatmap,
phytools, purrr, readxl, reticulate, scales,
SummarizedExperiment, stringdist, tensorflow, tidytree,
tidyselect, vegan, testthat (>= 3.0.0)
AnnotationDbi, ape, circlize, data.table, doParallel,
fda.usc, fgsea, ggalluvial, ggtree, ggrepel, ggridges,
ggseqlogo, grid, gridExtra, harmony, igraph, IRanges, limma,
keras, methods, msigdbr, org.Hs.eg.db, org.Mm.eg.db, pheatmap,
phytools, purrr, readr, readxl, reticulate, scales,
SummarizedExperiment, stringdist, tensorflow, tidytree,
tidyselect, vegan, testthat (>= 3.0.0)
AnnotationDbi, ape, bigstatsr, bio3d, Biobase, biomaRt,
caret, circlize, colorspace, data.table, dichromat, e1071,
edgeR, fda.usc, fgsea, ggalluvial, ggpubr, ggrepel, ggridges,
ggseqlogo, graphkernels, graphlayouts, grid, gridExtra,
harmony, igraph, iNEXT, IRanges, limma, keras, kmer, knitr,
magrittr, Matrix.utils, methods, monocle3, msigdbr, naivebayes,
org.Hs.eg.db, org.Mm.eg.db, Peptides, phangorn, pheatmap,
phytools, pROC, ProjecTILs, protr, purrr, r3dmol, randomForest,
RColorBrewer, readbitmap, readr, readxl, reticulate,
rstudioapi, rlang, Rtsne, scales, scuttle, SeuratWrappers,
SingleCellExperiment, slingshot, ssh, SummarizedExperiment,
stringdist, tensorflow, tidygraph, tidytree, tidyselect, umap,
vanddraabe, vegan, viridis, xgboost, yardstick, testthat (>=
3.0.0)
testthat (>= 3.0.0), USAboundaries, sf, sn, INLA (>=
21.08.31), rasterVis, ggmap, ggpolypath, RColorBrewer, cowplot,
knitr, kableExtra, rmarkdown, covr
testthat (>= 3.0.0), USAboundaries, sf, sn, INLA (>=
21.08.31), rasterVis, ggmap, ggpolypath, RColorBrewer, cowplot,
knitr, kableExtra, rmarkdown, spocc, covr
testthat, devtools, rmarkdown, knitr, tidyr,
testthat, Hmisc, nlme, GA, deSolve, shiny, rhandsontable,
knitr, rmarkdown
testthat, Hmisc, nlme, GA, deSolve, Rcpp, shiny,
rhandsontable, knitr, rmarkdown, gridExtra, covr
testthat, Hmisc, nlme, GA, deSolve, Rcpp, shiny,
rhandsontable, knitr, rmarkdown, gridExtra, covr, devtools,
mrgsolve
parallel, bigmemory, BASIX, WhopGenome, BlockFeST
quantmod, DEoptim(>= 2.2.1), iterators, fGarch, Rglpk,
quadprog, ROI (>= 0.1.0), ROI.plugin.glpk (>= 0.0.2),
ROI.plugin.quadprog (>= 0.0.2), ROI.plugin.symphony (>= 0.0.2),
pso, GenSA, corpcor, testthat, nloptr (>= 1.0.0), MASS,
robustbase
knitr, dplyr, rmarkdown, testthat, covr, purrr
crossdes, knitr, rmarkdown, devtools, tufte
crossdes, knitr, rmarkdown, devtools, tufte, emmeans
crossdes, knitr, rmarkdown, tufte, emmeans
doBy, foreign, pps, reshape, sampling, samplingbook, survey
doBy, foreign, lpSolve, plyr, pps, Rcpp, reshape, sampling,
samplingbook, survey
doBy, foreign, lpSolve, plyr, pps, Rcpp, reshape, sampling,
samplingbook, survey, knitr, rmarkdown
doBy, foreign, lpSolve, markdown, plyr, pps, Rcpp, reshape,
roxygen2, sampling, samplingbook, survey, knitr, rmarkdown
covr, knitr, markdown, rmarkdown, testthat (>= 3.0.0)
knitr, rmarkdown, foreach, doParallel, EBImage, akima,
imager, ProFound, sn
ProFit, knitr, rmarkdown, EBImage, akima, imager,
LaplacesDemon
ProFit, knitr, rmarkdown, EBImage, imager, LaplacesDemon,
Rfast, fastmatch, snow, doSNOW, bigmemory
knitr, rmarkdown, fable, dplyr,tidyr, magrittr, stringi
Rdpack, knitr, rmarkdown, fable, dplyr,tidyr, magrittr,
stringi
knitr, rmarkdown, roxygen2, vegan, testthat, ade4, doParallel
knitr, rmarkdown, roxygen2, vegan, testthat, ade4,
doParallel, Rdpack
qtbase, RGtk2, cairoDevice, gWidgetsRGtk2, gWidgets, tcltk
reshape, plyr, stringr, ggplot2, log4r, RMySQL
foreign, feather, reshape, plyr, digest, formatR, qs,
stringr, ggplot2, lubridate, log4r (>= 0.1-5), DBI, RMySQL,
RSQLite, gdata, RODBC, RJDBC, readxl, xlsx, tuneR, pixmap,
data.table, RPostgreSQL, GetoptLong, whisker, tibble, testthat
(>= 0.8)
foreign, feather, reshape, plyr, formatR, qs, stringr,
ggplot2, lubridate, log4r (>= 0.1-5), DBI, RMySQL, RSQLite,
gdata, RODBC, RJDBC, readxl, xlsx, tuneR, pixmap, data.table,
RPostgreSQL, GetoptLong, whisker, testthat (>= 0.8)
foreign, reshape, plyr, stringr, ggplot2, lubridate, log4r,
RMySQL, RSQLite, xlsx, gdata, RODBC
foreign, reshape, plyr, stringr, ggplot2, lubridate, log4r,
RMySQL, RSQLite, xlsx, gdata, RODBC, tuneR, pixmap, data.table
foreign, reshape, plyr, stringr, ggplot2, lubridate, log4r,
RMySQL, RSQLite, gdata, RODBC, tuneR, pixmap, data.table,
RPostgreSQL
foreign, reshape, plyr, stringr, ggplot2, lubridate, log4r,
RMySQL, RSQLite, gdata, RODBC, RJDBC, xlsx, tuneR, pixmap,
data.table, RPostgreSQL, GetoptLong, testthat, Defaults
foreign, reshape, plyr, stringr, ggplot2, lubridate, log4r
(>= 0.1-5), DBI, RMySQL, RSQLite, gdata, RODBC, RJDBC, xlsx,
tuneR, pixmap, data.table, RPostgreSQL, GetoptLong, whisker,
testthat
foreign, reshape, plyr, stringr, ggplot2, lubridate, log4r
(>= 0.1-5), DBI, RMySQL, RSQLite, gdata, RODBC, RJDBC, xlsx,
tuneR, pixmap, data.table, RPostgreSQL, GetoptLong, whisker,
testthat (>= 0.8)
foreign, reshape, plyr, digest, formatR, stringr, ggplot2,
lubridate, log4r (>= 0.1-5), DBI, RMySQL, RSQLite, gdata,
RODBC, RJDBC, readxl, xlsx, tuneR, pixmap, data.table,
RPostgreSQL, GetoptLong, whisker, tibble, testthat (>= 0.8)
foreign, reshape, plyr, digest, formatR, stringr, ggplot2,
lubridate, log4r (>= 0.1-5), DBI, RMySQL, RSQLite, gdata,
RODBC, RJDBC, xlsx, tuneR, pixmap, data.table, RPostgreSQL,
GetoptLong, whisker, testthat (>= 0.8)
foreign, feather, reshape, plyr, digest, formatR, stringr,
ggplot2, lubridate, log4r (>= 0.1-5), DBI, RMySQL, RSQLite,
gdata, RODBC, RJDBC, readxl, xlsx, tuneR, pixmap, data.table,
RPostgreSQL, GetoptLong, whisker, tibble, testthat (>= 0.8)
fastICA, tsne, FastKNN, MASS, pcaPP, spdep, methods, pracma,
grid, mgcv
fastICA, tsne, FastKNN, MASS, pcaPP, spdep, methods, pracma,
grid, mgcv, fields, png, reshape2
DataVisualizations, fastICA, tsne, FastKNN, MASS, pcaPP,
spdep, methods, pracma, grid, mgcv, fields, png, reshape2
DataVisualizations, fastICA, tsne, FastKNN, MASS, pcaPP,
spdep, methods, pracma, grid, mgcv, fields, png, reshape2,
Rtsne
DataVisualizations, fastICA, tsne, FastKNN, MASS, pcaPP,
spdep, pracma, grid, mgcv, fields, png, reshape2, Rtsne,
methods
DataVisualizations, fastICA, tsne, FastKNN, MASS, pcaPP,
spdep, pracma, grid, mgcv, fields, png, reshape2, Rtsne,
methods, dendextend
DataVisualizations, fastICA, tsne, FastKNN, MASS, pcaPP,
spdep, pracma, grid, mgcv, fields, png, reshape2, Rtsne,
methods, dendextend, umap, uwot, DatabionicSwarm
DataVisualizations, fastICA, tsne, FastKNN, MASS, pcaPP,
spdep, pracma, grid, mgcv, fields, png, reshape2, Rtsne,
methods, dendextend, umap, uwot, DatabionicSwarm, parallelDist
abind, car (>= 1.0-15), effects (>= 1.0-7), foreign, grid, lattice, lmtest, MASS, mgcv, multcomp, nlme, nnet, QCA, relimp
abind, car (>= 1.1-1), effects (>= 1.0-7), foreign, grid, lattice, lmtest, MASS, mgcv, multcomp, nlme, nnet, relimp, rgl, RODBC, XML
abind, car (>= 1.1-1), foreign, relimp, XML
knitr, rmarkdown, testthat, plyr, gtools
plyr, knitr, rmarkdown, testthat, gtools
parallel, stringr, testthat, faraway, quantoptr (>= 0.1.3),
survminer
GGally, ggplot2, network, pheatmap, rgl, sna
dplyr, kableExtra, knitr, rmarkdown, testthat (>= 2.1.0)
bookdown, knitr, rmarkdown, testthat, usethis
bookdown, knitr, phangorn, Rcpp, rmarkdown, testthat, usethis
bookdown, knitr, phangorn, Rcpp, rmarkdown, testthat,
usethis, vdiffr
bookdown, knitr, phangorn, Rcpp, rmarkdown, testthat,
usethis, vdiffr,
Rcpp, utils, data.table, shiny, plotly, httr, biomaRt,
ggplot2, sp, packcircles, raster, mapplots, spdep, rgdal,
gdalUtils, rworldmap, doParallel, foreach, knitr, rmarkdown
BatchJobs (>= 1.6), BiocParallel (>= 1.0.3), gtools (>=
3.5.0)
gtools (>= 3.4.1), BatchJobs (>= 1.2), BiocParallel (>=
0.4.1)
gtools (>= 3.4.1), BatchJobs (>= 1.5), BiocParallel (>=
0.4.1)
gtools (>= 3.4.2), BatchJobs (>= 1.6), BiocParallel (>=
0.6.1)
gtools (>= 3.5.0), BatchJobs (>= 1.6), BiocParallel (>=
0.6.1)
R.utils (>= 1.8.1), Matrix, SparseM, Rcompression
R.utils (>= 1.8.2), Matrix, SparseM, Rcompression
R.utils (>= 1.8.7), Matrix, SparseM, Rcompression
tcltk, markdown, knitr, R.devices, base64enc, ascii
tcltk, tools, digest (>= 0.6.3), R.devices (>= 2.2.2), ascii,
markdown, knitr
akima, coda, maptools, MBA, parallel, shapefiles, sp, spdep,
splines
akima, coda, maps, maptools, MBA, parallel, shapefiles, sp,
spdep, splines
akima, coda, maps, maptools, MBA, parallel, shapefiles, sp,
spdep, splines, rgdal, spData, rgeos
akima, coda, maps, maptools, MBA, parallel, shapefiles, sp,
spdep, splines, rgdal, spData
interp, coda, maps, maptools, MBA, parallel, shapefiles, sp,
spdep, splines, rgdal, spData, fields
boot, splines, survival, stats, cluster, nlme, rpart, nnet,
utils
boot, splines, survival, stats, cluster, nlme, rpart, nnet, utils
boot, splines, survival, cluster, nlme, rpart, nnet
bbmle, lattice, coda, lme4, ggplot2, testthat, knitr
bbmle, lme4, ggplot2 (>= 2.2.0), testthat, knitr
bbmle, lme4, ggplot2 (>= 3.4.0), testthat, knitr
knitr, microbenchmark, pryr, testthat, ggplot2, scales
dplyr, knitr, reshape2, rmarkdown, testthat, tidyr
testthat, collections, dplyr, DBI, RSQLite, tibble, pryr
testthat, collections, dplyr, DBI, RSQLite, ggplot2, tibble,
tidyr, pryr
DBI, ggplot2, RSQLite, testthat (>= 3.0.0)
knitr, rmarkdown, plotly, haplotypes, adegenet, ggplot2,
ggtree, scatterpie, phylobase, furrr, future, progressr,
foreach, doParallel
testthat, mapproj, gtable, indicspecies, Heatplus
knitr, rmarkdown, xcms, testthat, MSnbase
knitr, rmarkdown, xcms, testthat, MSnbase,
InterpretMSSpectrum, BiocManager, xml2, stringi
desc, devtools, goodpractice, keyring, knitr, lintr,
roxygen2, rmarkdown, testthat (>= 3.0.0), usethis, covr
desc, devtools, goodpractice, knitr, lintr, roxygen2,
rmarkdown, testthat (>= 3.0.0), usethis, covr
spelling, desc, devtools, goodpractice, keyring, knitr,
markdown, roxygen2, rmarkdown, testthat (>= 3.0.0), usethis,
covr
arrow, bit64, dplyr (>= 0.7.0), dbplyr, testthat, tibble,
vroom (>= 1.2.0), covr, knitr, rmarkdown, jsonlite
arrow, data.table, dplyr, dbplyr, testthat
arrow, bit64, dplyr (>= 0.7.0), dbplyr, testthat
arrow, bit64, dplyr (>= 0.7.0), dbplyr, testthat, vroom
arrow, bit64, dplyr (>= 0.7.0), dbplyr, testthat, vroom (>=
1.2.0)
arrow, bit64, dplyr (>= 0.7.0), dbplyr, testthat, vroom (>=
1.2.0), covr, knitr, rmarkdown, jsonlite
arrow, bit64, dplyr (>= 0.8.0), dbplyr (>= 1.4.3), testthat,
tibble, vroom (>= 1.2.0), covr, knitr, rmarkdown, jsonlite
arrow, bit64, dplyr (>= 0.8.0), dbplyr (>= 1.4.3), testthat,
tibble, vroom (>= 1.2.0), covr, knitr, rmarkdown, jsonify,
jsonlite
rmarkdown, knitr, testthat (>= 0.11.0), foreach, tidyverse,
rstanarm (>= 2.15.3)
rmarkdown, knitr, testthat (>= 0.11.0), foreach, tidyverse,
rstanarm (>= 2.17.2)
rmarkdown, knitr, testthat (>= 2.0.0), foreach, tidyverse,
rstanarm (>= 2.17.2)
rmarkdown, knitr, testthat (>= 2.0.0), foreach, tidyverse,
purrr, rstanarm (>= 2.17.2)
rmarkdown, knitr, testthat (>= 2.0.0), foreach, tidyverse,
purrr, rstanarm (>= 2.17.2), scales
rmarkdown, knitr, testthat (>= 2.0.0), foreach, tidyverse,
purrr, rstanarm (>= 2.17.2), scales, tools, broom, tidyr
rmarkdown, knitr, testthat (>= 2.0.0), foreach, tidyverse,
purrr, rstanarm (>= 2.17.2), scales, tools, broom, tidyr,
rstantools (>= 2.0.0)
rmarkdown, knitr, testthat (>= 2.0.0), foreach, purrr,
rstanarm (>= 2.17.2), scales, tools, broom, tidyr, rstantools
(>= 2.0.0), parallel
rmarkdown, knitr, testthat (>= 2.0.0), foreach, purrr,
rstanarm (>= 2.17.2), scales, tools, broom, tidyr, parallel
knitr, rmarkdown, testthat (>= 3.0.0), uniformly, viridisLite
dplyr, knitr, rmarkdown, spelling, testthat (>= 3.0.0),
tibble
dplyr, knitr, rmarkdown, spelling, stringr, testthat (>=
3.0.0), tibble
tsqn, doParallel, doSNOW, foreach, mclust, Matrix
tidyverse, sf, units, tmap, lwgeom, ggmap, knitr, testthat,
roxygen2, devtools
terra, readxl, units, ggplot2, stringr, rvest, xml2, scales,
knitr, testthat, roxygen2, devtools, rmarkdown, dplyr, lwgeom,
s2, covr, tidyterra
dplyr, sf, units, tmap, lwgeom, ggmap, knitr, testthat,
roxygen2, devtools, readxl
dplyr, units, tmap, ggmap, knitr, testthat, roxygen2,
devtools, readxl
dplyr, readxl, units, tmap, knitr, testthat, roxygen2,
devtools
dplyr, readxl, units, tmap, ggplot2, knitr, testthat,
roxygen2, devtools, rmarkdown
raster, dplyr, readxl, units, ggplot2, scales, knitr,
testthat, roxygen2, devtools, rmarkdown
raster, readxl, units, ggplot2, scales, knitr, testthat,
roxygen2, devtools, rmarkdown
raster, readxl, units, ggplot2, scales, knitr, testthat,
roxygen2, devtools, rmarkdown, lwgeom
raster, readxl, units, ggplot2, scales, knitr, testthat,
roxygen2, devtools, rmarkdown, dplyr, lwgeom
raster, readxl, units, ggplot2, scales, knitr, testthat,
roxygen2, devtools, rmarkdown, dplyr, lwgeom, covr
raster, czso, units, ggplot2, stringr, rvest, xml2, scales,
knitr, testthat, roxygen2, devtools, rmarkdown, dplyr, lwgeom,
covr
raster, czso, units, ggplot2, stringr, rvest, xml2, scales,
knitr, testthat, roxygen2, devtools, rmarkdown, dplyr, lwgeom,
s2, covr
raster, readxl, units, ggplot2, stringr, rvest, xml2, scales,
knitr, testthat, roxygen2, devtools, rmarkdown, dplyr, lwgeom,
s2, covr
chipPCR, dplyr, ggplot2, knitr, kfigr, MBmca, shiny,
shinythemes
chipPCR, dplyr, ggplot2, knitr, kfigr, MBmca, shiny, shinyjs,
shinythemes, V8
chipPCR, dplyr, ggplot2, knitr, kfigr, MBmca, shiny, shinyjs,
shinythemes, V8, testthat
chipPCR, magrittr, reshape2, qpcR, dplyr, ggplot2, knitr,
kfigr, MBmca, shiny, shinyjs, shinythemes, V8, testthat
chipPCR, magrittr, reshape2, qpcR, dplyr, ggplot2, knitr,
kfigr, MBmca, shiny, shinyjs, shinythemes, shinyMolBio, V8,
testthat
knitr, rmarkdown, dplyr, ggplot2, latex2exp
data.table, devtools, fs, knitr, magrittr, qwraps2 (> 0.4.1),
rmarkdown, rjson, secret
devtools, fs, knitr, magrittr, qwraps2 (> 0.4.1), rmarkdown,
rjson, secret, testthat
checkmate (>= 1.8.4), DBI (>= 0.7.0), devtools (>= 1.13.0),
kableExtra, knitr (>= 1.18.0), odbc (>= 1.1.1), rmarkdown,
sessioninfo, testthat (>= 0.9)
devtools, knitr, methods, RODBC, testit, testthat
devtools, knitr, methods, RODBC, testit, testthat (>= 0.9)
devtools, knitr, rmarkdown, RODBC, testthat (>= 0.9)
devtools, knitr, rmarkdown, RODBC, RODBCext, testthat (>=
0.9)
devtools, kableExtra, knitr, rmarkdown, RODBC, RODBCext,
testthat (>= 0.9)
covr, knitr, rmarkdown, testthat (>= 3.0.0)
gee, geepack, knitr, lme4, pscl, rmarkdown, splines,
survival, testthat (>= 3.0.0)
car, GPArotation, mclust, psych, UsingR, vcd
car, cluster, foreign, GPArotation, MASS, mclust, psych,
UsingR, vcd
ncdf4, RNetCDF, testthat, minpack.lm, segmented, knitr,
rmarkdown
testthat, minpack.lm, segmented, knitr, rmarkdown
ncdf4, RNetCDF, testthat, minpack.lm, segmented, knitr
testthat, minpack.lm, segmented, knitr, rmarkdown, lognorm,
ggplot2, tidyr, bigleaf (>= 0.7)
testthat, minpack.lm, segmented, knitr, rmarkdown, lognorm,
ggplot2, tidyr, markdown
testthat, minpack.lm, segmented, knitr, rmarkdown, lognorm,
ggplot2, tidyr, markdown, mlegp
ncdf4, RNetCDF, testthat, knitr, rmarkdown
knitr, rmarkdown, lattice, MASS, caret, rgl, prettydoc,
knitr, rmarkdown, lattice (>= 0.20), MASS, caret, prettydoc
(>= 0.3),
CircStats, cluster, gridBase, maps, mapproj, oz, pixmap, vcd
CircStats, cluster, gridBase, maps, mapproj, oz, party, pixmap, vcd
CircStats, cluster, gridBase, ipred, maps, mapproj, oz, party, pixmap, vcd
CircStats, cluster, gridBase, ipred, maps, mapproj, oz,
party, pixmap, vcd
agricolae, animation, CircStats, circular, cluster,
colorspace, compositions, datasets, diagram, dichromat,
ggplot2, gplots, graph, graphics, grDevices, grid, gridBase,
gridExtra, gridSVG, grImport, gWidgetsRGtk2, hexbin, Hmisc,
hyperdraw, igraph, iplots, ipred, lattice, latticeExtra,
latticist, mapdata, maps, maptools, MASS, misc3d, munsell,
network, openair, oz, party, pixmap, playwith, plotrix, pmg,
png, quantmod, raster, Rcmdr, RColorBrewer, rgdal, rggobi, rgl,
RGraphics, Rgraphviz, scatterplot3d, soiltexture, sp,
SVGAnnotation, symbols, TeachingDemos, tools, vcd, vcdExtra,
venneuler, vrmlgen
agricolae, animation, CircStats, circular, cluster,
colorspace, diagram, dichromat, gplots, graph, gridBase,
gridExtra, gridSVG, grImport, gWidgets, gWidgetsRGtk2, hexbin,
Hmisc, hyperdraw, hypergraph, igraph, iplots, ipred,
latticeExtra, mapdata, maps, maptools, MASS, misc3d, munsell,
network, openair, oz, party, pixmap, playwith, plotrix, pmg,
png, quantmod, raster, Rcmdr, RColorBrewer, rgdal, rggobi, rgl,
RGraphics, Rgraphviz, scatterplot3d, soiltexture, sp,
SVGAnnotation, symbols, TeachingDemos, tools, vcd, vcdExtra,
venneuler, vrmlgen, XML
agricolae, animation, CircStats, circular, cluster,
colorspace, compositions, datasets, diagram, dichromat,
ggplot2, gplots, graph, graphics, grDevices, grid, gridBase,
gridExtra, gridSVG, grImport, gWidgetsRGtk2, hexbin, Hmisc,
hyperdraw, igraph0, iplots, ipred, lattice, latticeExtra,
latticist, mapdata, maps, maptools, MASS, misc3d, munsell,
network, openair, oz, party, pixmap, playwith, plotrix, pmg,
png, quantmod, raster, Rcmdr, RColorBrewer, rgdal, rggobi, rgl,
RGraphics, Rgraphviz, scatterplot3d, soiltexture, sp,
SVGAnnotation, symbols, TeachingDemos, tools, vcd, vcdExtra,
venneuler, vrmlgen
agricolae, animation, CircStats, circular, cluster,
colorspace, compositions, diagram, dichromat, gplots, graph,
gridBase, gridExtra, gridSVG, grImport, gWidgetsRGtk2, hexbin,
Hmisc, hyperdraw, igraph, iplots, ipred, latticeExtra,
latticist, mapdata, maps, maptools, MASS, misc3d, munsell,
network, openair, oz, party, pixmap, playwith, plotrix, pmg,
png, quantmod, raster, Rcmdr, RColorBrewer, rgdal, rggobi, rgl,
RGraphics, Rgraphviz, scatterplot3d, soiltexture, sp,
SVGAnnotation, symbols, TeachingDemos, tools, vcd, vcdExtra,
venneuler, vrmlgen
agricolae, animation, CircStats, circular, cluster,
colorspace, diagram, dichromat, gplots, graph, gridBase,
gridExtra, gridSVG, grImport, gWidgetsRGtk2, hexbin, Hmisc,
hyperdraw, igraph, iplots, ipred, latticeExtra, latticist,
mapdata, maps, maptools, MASS, misc3d, munsell, network,
openair, oz, party, pixmap, playwith, plotrix, pmg, png,
quantmod, raster, Rcmdr, RColorBrewer, rgdal, rggobi, rgl,
RGraphics, Rgraphviz, scatterplot3d, soiltexture, sp,
SVGAnnotation, symbols, TeachingDemos, tools, vcd, vcdExtra,
venneuler, vrmlgen
agricolae, animation, CircStats, circular, cluster,
colorspace, diagram, dichromat, gplots, graph, gridBase,
gridExtra, gridSVG, grImport, gWidgetsRGtk2, hexbin, Hmisc,
hyperdraw, hypergraph, igraph, iplots, ipred, latticeExtra,
latticist, mapdata, maps, maptools, MASS, misc3d, munsell,
network, openair, oz, party, pixmap, playwith, plotrix, pmg,
png, quantmod, raster, Rcmdr, RColorBrewer, rgdal, rggobi, rgl,
RGraphics, Rgraphviz, scatterplot3d, soiltexture, sp,
SVGAnnotation, symbols, TeachingDemos, tools, vcd, vcdExtra,
venneuler, vrmlgen
cluster, colorspace, jpeg, KernSmooth, mapdata, maps, party,
pixmap, png, quantmod, rsvg, showtext, sysfonts, tikzDevice,
XML, zoo
installr, knitr, magrittr, rmarkdown, shiny, stringi, covr,
testthat
knitr, magrittr, rmarkdown, shiny, stringi, covr, testthat
knitr, magrittr, stringi, covr, testthat
knitr, rmarkdown, testthat, roxygen2, MASS
nlme, lme4 (>= 0.999375-20), SemiPar, mgcv, amer
randomForest, parallel, survival, randomForestSRC, glmnet
tclust, knitr, testthat (>= 2.1.0), rmarkdown
covr, DBItest (>= 1.7.0), rprojroot, testthat
covr, DBItest (>= 1.7.0), rprojroot, testthat, withr
DBItest (>= 1.7.0), readr, rprojroot, testthat, withr
testthat, xml2, Rmixmod, blockcluster, knitr
testthat, xml2, Rmixmod, blockcluster, knitr, ClusVis,
markdown
testthat, xml2, Rmixmod, blockcluster, knitr, ClusVis,
rmarkdown
Rmixmod, blockcluster, testthat, RInside, xml2
testthat, xml2, RMixtCompIO, Rmixmod, blockcluster
testthat, xml2, RMixtCompIO (>= 4.0.4), Rmixmod, blockcluster
cowplot, ggplot2, knitr, reshape2, rmarkdown
spelling, rdflib, geiger (>= 2.0), phytools (>= 0.3.93),
knitr (>= 1.5), rfigshare (>= 0.3.0), knitcitations (>= 1.0.1),
testthat (>= 0.10.0), phylobase (>= 0.6.8), rmarkdown (>=
0.3.3), xslt, taxize (>= 0.2.2), covr
spelling, rdflib, geiger (>= 2.0), phytools (>= 0.3.93),
knitr (>= 1.5), rfigshare (>= 0.3.0), knitcitations (>= 1.0.1),
testthat (>= 0.10.0), rmarkdown (>= 0.3.3), xslt, taxize (>=
0.2.2), covr
spelling, rdflib, geiger (>= 2.0), phytools (>= 0.3.93),
knitr (>= 1.5), rfigshare (>= 0.3.0), knitcitations (>= 1.0.1),
testthat (>= 0.10.0), rmarkdown (>= 0.3.3), rlang, xslt, covr,
taxadb
spelling, rdflib, geiger (>= 2.0), phytools (>= 0.3.93),
knitr (>= 1.5), rfigshare (>= 0.3.0), knitcitations (>= 1.0.1),
testthat (>= 0.10.0), rmarkdown (>= 0.3.3), xslt, covr,
taxalight
testthat (>= 0.11.0), covr, reportr, shades
jpeg, loder, mmand, testthat (>= 0.11.0)
jpeg, loder, mmand, testthat (>= 0.11.0), covr
testthat (>= 3.0.0), mockery, mockr, knitr, rmarkdown, ROCR,
pROC, pracma, stats
RODBC, mlbench, verification, PASWR, scatterplot3d
ROI.plugin.alabama, ROI.plugin.ecos, ROI.plugin.glpk,
ROI.plugin.ipop, ROI.plugin.lpsolve, ROI.plugin.nloptr,
ROI.plugin.optimx, ROI.plugin.scs, ROI.plugin.symphony,
ROI.plugin.quadprog, numDeriv
BB, ucminf, minqa, dfoptim, lbfgsb3, lbfgs, subplex
BB, ucminf, minqa, dfoptim, lbfgsb3c, lbfgs, subplex
RMySQL (>= 0.9-3), RSQLite, SSOAP, XMLSchema, testthat, XML,
maptools, sp, RColorBrewer, RPostgreSQL (>= 0.4), geonames
RSQLite, testthat, RColorBrewer, maptools, SSOAP, XML,
geonames
knitr, rmarkdown, rgdal, tinytest, whitebox (>= 2.0.0)
callr, covr, DBItest (>= 1.7.0), knitr, rmarkdown, testthat
callr, covr, DBItest (>= 1.7.1), knitr, rmarkdown, testthat
testthat, knitr, spData, rstudioapi, bookdown
knitr, rmarkdown, dplyr, ggplot2, roxygen2
knitr, rgrass7, rmarkdown, testthat, RSAGA
knitr, rmarkdown, testthat (>= 3.0.0), dplyr, tibble
phangorn, rlist, scales, R.utils,cluster, RColorBrewer, nlme,
car, smatr, picante, vegan,ddpcr, geomorph, rmarkdown,
knitr,kableExtra, plotrix, pdftools, rgl, mvMORPH, ggplot2,
qpdf, inflection, Rvcg, Morpho, evolqg
phangorn, rlist, scales, R.utils,cluster,binr, RColorBrewer,
nlme, car, smatr, picante, vegan,ddpcr, geomorph, rmarkdown,
knitr,kableExtra, plotrix, pdftools, rgl, mvMORPH, ggplot2,
qpdf
phangorn, rlist, scales, R.utils,cluster, RColorBrewer, nlme,
car, smatr, picante, vegan,ddpcr, geomorph, rmarkdown,
knitr,kableExtra, plotrix, pdftools, rgl, mvMORPH, ggplot2,
qpdf, inflection, Rvcg, Morpho, evolqg, manipulate
phangorn, rlist, scales, R.utils,cluster, RColorBrewer, nlme,
car, smatr, picante, vegan,ddpcr, geomorph, rmarkdown,
knitr,kableExtra, plotrix, pdftools, rgl, mvMORPH, ggplot2,
qpdf, inflection, Rvcg, Morpho, evolqg, manipulate, webshot2,
markdown
phangorn, rlist, scales, R.utils,cluster, RColorBrewer, nlme,
car, smatr, picante, vegan,ddpcr, geomorph, rmarkdown,
knitr,kableExtra, plotrix, pdftools, rgl, mvMORPH, ggplot2,
qpdf, inflection, Rvcg, Morpho, evolqg, manipulate, webshot2,
markdown, Rphylopars
phangorn, rlist, scales, R.utils,cluster, RColorBrewer, nlme,
car, smatr, picante, vegan,ddpcr, geomorph, rmarkdown,
knitr,kableExtra, plotrix, pdftools, rgl, mvMORPH, ggplot2,
qpdf, inflection, Rvcg, Morpho, evolqg, manipulate, markdown,
Rphylopars, phylolm, webshot2
fields, rgl, qgraph, tcltk, testthat, covr
fields, rgl, qgraph, tcltk, tkrplot, testthat, covr
fields, SDMTools, tkrplot, rgl, qgraph, aplpack
fields, SDMTools, rgl, qgraph, AICcmodavg
fields, SDMTools, rgl, qgraph, AICcmodavg, tcltk
fields, SDMTools, tkrplot, rgl, qgraph, aplpack, AICcmodavg
knitr, rmarkdown, testthat, digest, maptools, rgeos
knitr, rmarkdown, testthat, maptools, rgeos
rmarkdown, dplyr, testthat, covr, lintr, pkgdown
RSQLite, knitr, rmarkdown, dplyr, testthat, covr, lintr,
pkgdown
DBItest (>= 1.7.0), knitr, rmarkdown, testthat
callr, DBItest (>= 1.7.0), gert, gh, knitr, rmarkdown, hms,
rvest, testthat, xml2
callr, DBItest (>= 1.7.2.9001), gert, gh, hms, knitr,
magrittr, rmarkdown, rvest, testthat (>= 3.0.0), withr, xml2
DBItest (>= 1.7.0), gert, gh, knitr, rmarkdown, rvest,
testthat, xml2
DBItest (>= 1.7.0), gert, gh, knitr, rmarkdown, hms, rvest,
testthat, xml2
testthat, rmarkdown, SparseM, numDeriv, LiblineaR
igraph, knitr, rmarkdown, stringr, seqinr
testthat, knitr, Rcompression, covr, rmarkdown
binman, XML, testthat, knitr, covr, rmarkdown
tcltk, rlecuyer, snow, network, codetools
tcltk, snow, rlecuyer, network, codetools, lattice
tcltk, snow, rlecuyer, network, codetools, lattice, MASS,
xtable
tcltk, snow, rlecuyer, network, codetools, lattice, MASS,
parallel, xtable, tools
tcltk, snow, rlecuyer, network, codetools
tcltk, network, codetools, lattice, MASS, parallel, xtable,
tools
rgdal, randomForest, e1071, gridExtra, testthat
rgdal, randomForest, kernlab, e1071, gridExtra, testthat
randomForest, kernlab, e1071, gridExtra, pls, testthat
rgdal, randomForest, kernlab, e1071, gridExtra, pls, testthat
rgdal, tripack, colorspace, dichromat, rgl
rgdal, tripack, colorspace, dichromat, rgl, XML
realized, robustbase, cubature, mvtnorm, chron
testthat (>= 2.0.1), mockery (>= 0.4.1.1), openssl, webmockr,
devtools
knitr, rmarkdown, markdown, Gviz, rtracklayer
rgdal, Quandl, fitdistrplus, lpSolve, rugarch,
PerformanceAnalytics
lpSolve, rugarch, Quandl, rgdal, PerformanceAnalytics
testthat (>= 3.0.0), covr, lpSolve, PerformanceAnalytics,
Quandl, rgdal, rugarch
testthat (>= 3.0.0), covr, lpSolve, PerformanceAnalytics,
rgdal, rugarch, tidyquant, feasts, fabletools
testthat (>= 3.0.0), covr, lpSolve, PerformanceAnalytics,
rgdal, rugarch, tidyquant, feasts, fabletools, MASS
spelling, knitr, rmarkdown, testthat, lubridate
spelling, knitr, rmarkdown, testthat, lubridate, vcr
data.table, ggplot2, gridExtra, knitr, quantmod, rmarkdown,
testthat, vars, xts, zoo
data.table, ggplot2, gridExtra, knitr, quantmod, rmarkdown,
testthat, vars
dgof, EMT, lsmeans, npsm, ordinal, survival
dgof, EMT, emmeans, npsm, ordinal, survival
ape, dgof, emmeans, EMT, FSA, labdsv, mvnormtest, ordinal,
RGCCA, statmod, survival
ape, betareg, dgof, emmeans, EMT, FSA, glmmTMB, labdsv,
MuMIn, mvnormtest, ordinal, RGCCA, statmod, survival
ape, betareg, dgof, emmeans, EMT, FSA, labdsv, MuMIn,
mvnormtest, ordinal, RGCCA, statmod, survival
testthat, knitr, rmarkdown, covr, stringr
bookdown, knitr, rmarkdown, testthat, covr
ggplot2, geosphere, lwgeom, microbenchmark, knitr, rmarkdown,
testthat (>= 2.1.0), covr
ctv, cranly, findR, foghorn, knitr, pacman, pkgnet, rmarkdown
ctv, cranly, findR, foghorn, knitr, pacman, pkgnet,
rmarkdown, xfun
ctv, cranly, findR, foghorn, knitr, pacman, rmarkdown, xfun
knitr, rmarkdown, testthat (>= 2.1.0), cowplot, reshape2,
dplyr
testthat, knitr, rmarkdown, tidyverse, plotly, openxlsx, DBI,
RSQLite, reticulate
testthat, knitr, rmarkdown, tidyverse, ggplot2, dplyr,
plotly, openxlsx, DBI, RSQLite, reticulate
DESeq2, destiny, knitr, rmarkdown, scran
batchelor, DESeq2, destiny, knitr, rmarkdown,
SummarizedExperiment
batchelor, DESeq2, knitr, rmarkdown, SummarizedExperiment
batchelor, DESeq2, knitr, rmarkdown, SingleCellExperiment,
slingshot, SummarizedExperiment
knitr, rmarkdown, bodenmiller, tidyr, RColorBrewer, cytofan,
scales
jsonlite (>= 0.9.16), rmarkdown, shiny (>= 0.12.1)
spelling, ggplot2, ggtern, knitr, rmarkdown, fields, scales,
vcd, testthat, covr
spelling, ggplot2, knitr, rmarkdown, testthat, covr
raster, tcltk2, tcltk, tkrplot, spam, methods, colorspace
raster, tcltk2, tcltk, tkrplot, spam, methods, colorspace,
RColorBrewer
colorspace, RColorBrewer, raster, tcltk2, tcltk, tkrplot,
spam, tools
colorspace, RColorBrewer, mvtnorm, raster, tcltk2, tcltk,
tkrplot, spam, tools, geoR, minqa, soma, optimx, nloptr, pso,
GenSA
colorspace, RColorBrewer, mvtnorm, raster, tcltk2, tcltk,
tkrplot, spam, tools, minqa, soma, optimx, nloptr, pso, GenSA
knitr, rmarkdown, ggplot2, testthat (>= 2.1.0)
devtools, magick, knitr, weathercan, tidyhydat
devtools, magick, knitr, rmarkdown, weathercan, tidyhydat
devtools, DiagrammeRsvg, knitr, rmarkdown, rsvg
fts, xts, zoo, data.table, knitr, rmarkdown, minidown,
tinytest
fts, xts, zoo, data.table, simplermarkdown, tinytest
xts, zoo, data.table, simplermarkdown, tinytest
knitr, markdown, rmarkdown, testthat (>= 3.0.0)
Hmisc, EBImage (>= 4.0.0), RcellData (>= 1.3.0)
Rcpp, git2r, httr, testthat, tools, devtools
Rcpp(>= 0.10.3), git2r, httr, testthat, tools, devtools,
knitr, rmarkdown
car, lmtest, memisc, pglm, sandwich, knitr
abind, car (>= 1.0-13), effects (>= 1.0-3), foreign, lattice, lmtest, MASS, mgcv, multcomp, mvtnorm, nlme, relimp, rgl, sandwich, strucchange, zoo
abind, car (>= 1.0-14), effects (>= 1.0-7), foreign, lattice, lmtest, MASS, mgcv, multcomp, mvtnorm, nlme, nnet, relimp, rgl, sandwich, strucchange, zoo
abind, car (>= 1.0-15), effects (>= 1.0-7), foreign, grid, lattice, lmtest, MASS, mgcv, multcomp, mvtnorm, nlme, nnet, relimp, rgl, sandwich, strucchange, zoo
abind, car (>= 1.0-15), effects (>= 1.0-7), foreign, grid, lattice, lmtest, MASS, mgcv, multcomp, mvtnorm, nlme, nnet, relimp, sandwich, strucchange, zoo
abind, car (>= 1.0-15), effects (>= 1.0-7), foreign, grid, lattice, lmtest, MASS, mgcv, multcomp, nlme, nnet, relimp
abind, car (>= 1.1-1), effects (>= 1.0-7), foreign, grid, lattice, lmtest, MASS, mgcv, multcomp, nlme, nnet, relimp, RODBC
abind, car (>= 1.1-1), effects (>= 1.0-7), foreign, grid, lattice, lmtest, MASS, mgcv, multcomp, nlme, nnet, relimp, rgl, RODBC
abind, car (>= 1.2-1), effects (>= 1.0-7), foreign, grid, lattice, lmtest, MASS, mgcv, multcomp (>= 0.991-2), nlme, nnet, relimp, rgl, RODBC
abind, aplpack, car (>= 1.2-1), effects (>= 1.0-7), foreign, grid, lattice, lmtest, MASS, mgcv, multcomp (>= 0.991-2), nlme, nnet, relimp, rgl, RODBC
abind, aplpack, car (>= 1.2-1), effects (>= 1.0-7), foreign,
grid, lattice, lmtest, MASS, mgcv, multcomp (>= 0.991-2), nlme,
nnet, relimp, rgl, RODBC
abind, aplpack, colorspace, effects (>= 1.0-7), foreign,
grid, Hmisc, lattice, leaps, lmtest, MASS, mgcv, multcomp (>=
0.991-2), nlme, nnet, relimp, rgl, RODBC
abind, aplpack, colorspace, effects (>= 1.0-7), e1071,
foreign, grid, Hmisc, lattice, leaps, lmtest, MASS, mgcv,
multcomp (>= 0.991-2), nlme, nnet, relimp, rgl, RODBC
abind, aplpack, colorspace, effects (>= 1.0-7), e1071,
foreign, grid, Hmisc, lattice, leaps, lmtest, MASS, mgcv,
multcomp (>= 0.991-2), nlme, nnet, relimp, rgl, RODBC, sem (>=
2.1-1)
abind, aplpack, car (>= 2.0-18), colorspace, effects (>=
1.0-7), e1071, foreign, grid, Hmisc, knitr, lattice, leaps,
lmtest, markdown, MASS, mgcv, multcomp (>= 0.991-2), nlme,
nnet, relimp, rgl, RODBC, sem (>= 2.1-1)
abind, aplpack, car (>= 2.0-18), colorspace, effects (>=
1.0-7), e1071, foreign, grid, Hmisc, lattice, leaps, lmtest,
MASS, mgcv, multcomp (>= 0.991-2), nlme, nnet, relimp, rgl,
RODBC, sem (>= 2.1-1)
aplpack, colorspace, effects (>= 3.0-1), e1071, foreign,
grid, Hmisc, lattice, leaps, lmtest, MASS, mgcv, multcomp (>=
0.991-2), nlme, nnet, relimp, rgl, rJava, RODBC, sem (>= 2.1-1)
aplpack, colorspace, effects (>= 3.0-1), e1071, foreign,
grid, Hmisc, knitr, lattice, leaps, lmtest, markdown, MASS,
mgcv, multcomp (>= 0.991-2), nlme, nnet, relimp, rgl, rJava,
RODBC, sem (>= 2.1-1)
aplpack, colorspace, effects (>= 3.0-1), e1071, foreign,
grid, Hmisc, knitr, lattice, leaps, lmtest, markdown, MASS,
mgcv, multcomp (>= 0.991-2), nlme, nnet, readxl, relimp, rgl,
rmarkdown, sem (>= 2.1-1)
aplpack, colorspace, effects (>= 3.0-1), e1071, foreign,
grid, Hmisc, knitr, lattice, leaps, lmtest, markdown, MASS,
mgcv, multcomp (>= 0.991-2), nlme, nnet, readxl, rgl,
rglwidget, rmarkdown (>= 0.9.5), sem (>= 2.1-1)
aplpack, boot, colorspace, effects (>= 3.0-1), e1071,
foreign, grid, Hmisc, knitr, lattice, leaps, lmtest, markdown,
MASS, mgcv, multcomp (>= 0.991-2), nlme, nnet, nortest, readxl,
rgl, rglwidget, rmarkdown (>= 0.9.5), sem (>= 2.1-1)
aplpack, boot, colorspace, effects (>= 3.0-1), e1071,
foreign, grid, Hmisc, knitr, lattice, leaps, lmtest, markdown,
MASS, mgcv, multcomp (>= 0.991-2), nlme, nnet, nortest, readxl,
rgl (>= 0.96.0), rmarkdown (>= 0.9.5), sem (>= 2.1-1)
aplpack, boot, colorspace, e1071, foreign, grid, Hmisc,
knitr, lattice, leaps, lmtest, markdown, MASS, mgcv, multcomp
(>= 0.991-2), nlme, nnet, nortest, readxl, rgl (>= 0.96.0),
rmarkdown (>= 0.9.5), sem (>= 2.1-1)
abind, aod, aplpack, car, clinfun, cmprsk, foreign, meta,
metatest, multcomp, mvtnorm, optmatch, pROC, RODBC, XLConnect
abind, aod, aplpack, car, clinfun, cmprsk, foreign, meta,
metatest, multcomp, mvtnorm, optmatch, pROC, RODBC, tableone,
XLConnect
abind, aod, aplpack, car, clinfun, cmprsk, foreign, meta,
metatest, multcomp, mvtnorm, optmatch, pROC, RODBC, tableone,
readxl
abind, aod, aplpack, car, clinfun, cmprsk, foreign, meta,
metatest, multcomp, mvtnorm, optmatch, pROC, tableone, readxl
abind, aod, aplpack, car, clinfun, cmprsk, foreign, meta,
metatest, multcomp, mvtnorm, optmatch, pROC, survRM2, tableone,
readxl
abind, aod, aplpack, car, clinfun, cmprsk, foreign, meta,
metatest, multcomp, mvtnorm, Matching, pROC, survRM2, tableone,
readxl
abind, aod, aplpack, car, clinfun, cmprsk, foreign, meta,
metatest, multcomp, mvtnorm, Matching, pROC (>= 1.15.0),
survRM2, tableone, readxl
abind, aod, aplpack, car, clinfun, cmprsk, foreign, meta,
metatest, multcomp, mvtnorm, Matching, pROC (>= 1.15.3),
survRM2, tableone, readxl
abind, aod, aplpack, car, clinfun, cmprsk, foreign, meta,
metatest, multcomp, mvtnorm, Matching, pROC (>= 1.15.0),
survivalROC, survRM2, tableone, readxl
abind, aod, aplpack, car, clinfun, cmprsk, foreign, meta,
metatest, multcomp, mvtnorm, Matching, pROC (>= 1.15.0),
survivalROC, survRM2, tableone, readxl, lmerTest
abind, aod, aplpack, brant, car, clinfun, cmprsk, foreign,
meta, metatest, netmeta, multcomp, mvtnorm, Matching, pROC (>=
1.15.0), survivalROC, survRM2, tableone, readxl, lmerTest
abind, aod, aplpack, brant, car, clinfun, cmprsk, foreign,
lawstat, meta, metatest, netmeta, multcomp, mvtnorm, Matching,
pROC (>= 1.15.0), survivalROC, survRM2, tableone, readxl,
lmerTest
abind, aod, aplpack, brant, car, clinfun, cmprsk, foreign,
ggplot2, lawstat, meta, metatest, netmeta, multcomp, mvtnorm,
Matching, pROC (>= 1.15.0), survivalROC, survRM2, tableone,
readxl, lmerTest, swimplot, currentSurvival
abind, distr, distrEx, e1071, effects (>= 1.0-7), foreign, grid, lattice, lmtest, MASS, mgcv, multcomp (>= 0.991-2), nlme, nnet, qcc, relimp, rgl, RODBC
abind, distr, distrEx, e1071, effects (>= 1.0-7), foreign,
grid, lattice, lmtest, MASS, mgcv, multcomp (>= 0.991-2), nlme,
nnet, qcc, relimp, RODBC
abind, car, distr, distrEx, e1071, effects (>= 1.0-7),
foreign, grid, lattice, lmtest, MASS, mgcv, multcomp (>=
0.991-2), nlme, nnet, qcc, relimp, RODBC
knitr, rmarkdown, compute.es, ggplot2, gridExtra, scales
lme4, leaps, mvtnorm, gmodels, abind, lattice, xtable,
pbkrtest, vcd, multcomp, e1071
lme4, leaps, mvtnorm, gmodels, abind, lattice, xtable,
pbkrtest, vcd, multcomp, e1071, nnet
lme4, leaps, mvtnorm, gmodels, abind, lattice, pbkrtest, vcd,
multcomp, e1071, nnet
YaleToolkit, MASS, lattice, qgraph, maps, ade4, effects,
abind, nnet, vcd, car, gpairs, Hmisc
SnowballC, ROpenOffice, RODBC, tm.plugin.factiva, twitteR
Snowball, RWeka, Rstem, ROpenOffice, RODBC,
tm.plugin.factiva, twitteR
SnowballC, ROpenOffice, RODBC, tm.plugin.factiva (>= 1.4),
tm.plugin.lexisnexis (>= 1.1), tm.plugin.europresse (>= 1.1),
tm.plugin.alceste (>= 1.1), twitteR
spelling, knitr, rmarkdown, testthat, popbio, ggplot2, maps,
dplyr, ggtern, covr, rcrossref
covr, dplyr, ggplot2, knitr, maps, rcrossref, rmarkdown,
spelling, testthat
RUnit, inline, rbenchmark, highlight, pkgKitten (>= 0.1.2)
RUnit, inline, rbenchmark, knitr, rmarkdown, pinp, pkgKitten
(>= 0.1.2)
tinytest, inline, rbenchmark, pkgKitten (>= 0.1.2)
testthat, gmp (>= 0.5-1), numbers (>= 0.6-6),
bigIntegerAlgos, parallel
testthat, gmp (>= 0.5-1), numbers (>= 0.6-6), bigIntegerAlgos
testthat, numbers (>= 0.6-6), bigIntegerAlgos
testthat, numbers (>= 0.6-6), bigIntegerAlgos, microbenchmark
testthat, numbers (>= 0.6-6), microbenchmark, knitr
testthat, numbers, microbenchmark, knitr, RcppBigIntAlgos,
rmarkdown
testthat, numbers, partitions, microbenchmark, knitr,
RcppBigIntAlgos, rmarkdown
tinytest, Matrix, pkgKitten, reticulate, slam
tinytest, Matrix (>= 1.3.0), pkgKitten, reticulate, slam
RUnit, Matrix, pkgKitten, reticulate, highlight
RUnit, Matrix, pkgKitten, reticulate, rmarkdown, knitr, pinp
RUnit, Matrix, pkgKitten, reticulate, rmarkdown, knitr, pinp,
slam
tinytest, Matrix, pkgKitten, reticulate, rmarkdown, knitr,
pinp, slam
testthat (>= 2.1.0), knitr, rmarkdown, ggplot2
knitr, rmarkdown, prettydoc, mvtnorm, RcppEigen
knitr (>= 1.1), ggplot2, msm, truncnorm, testthat,
microbenchmark
rbenchmark, microbenchmark, lattice, knitr, rmarkdown, pinp
covr, htmltools, rmarkdown (>= 1.8), stringi, testthat
covr, htmltools, rmarkdown (>= 1.8), stringi
knitr, rmarkdown, testthat, tibble, ggplot2, ggpubr
grDevices, testthat, rstudioapi, rprojroot, gbRd
knitr, testthat, DT, lubridate, ggplot2, rmarkdown
testthat, knitr, rmarkdown, interval, Icens
rmarkdown, knitr, mockery, testthat (>= 3.0.0)
knitr, rmarkdown, RUnit, BiocStyle, BiocGenerics, dplyr,
kableExtra, TCGAbiolinks, magick, stats
knitr, rmarkdown, RUnit, BiocStyle, BiocGenerics, dplyr,
kableExtra, TCGAbiolinks, magick, stats, qvalue
knitr, markdown, testthat, bibtex (>= 0.4.1)
MASS, graphics, ismev, evd, XML, numDeriv
ggplot2, jpeg, bmp, testthat, magrittr, rmarkdown
ggplot2, jpeg, bmp, testthat, magrittr, rmarkdown, ggiraph
tinytest (>= 1.0.0), lgr (>= 0.3.2), lintr, knitr, rmarkdown,
curl, sys
fs, gt, here, htmltools, knitr, processx, readr, rmarkdown,
rstudioapi, spelling, testthat (>= 2.1.0), usethis
fs, gt, here, htmltools, knitr, pkgload, processx, readr,
rmarkdown, rstudioapi, spelling, testthat (>= 2.1.0), usethis
markdown, rmarkdown, testthat, ggplot2, devtools
markdown, rmarkdown, testthat, ggplot2, devtools, RevGadgets,
PBSmapping, maptools, RColorBrewer, sp, rgdal
PBSmapping, maptools, RColorBrewer, sp, rgdal, loa
PBSmapping, maptools, sp, rgdal, loa, RColorBrewer
PBSmapping, maptools, sp, loa, RColorBrewer, leaflet
PBSmapping, maptools, sp, loa, RColorBrewer, leaflet,jpeg,
RCurl
PBSmapping, maptools, loa, RColorBrewer, leaflet,jpeg, RCurl
knitr, rmarkdown, rgdal, usmap, ggplot2, maptools
covr, httptest2, knitr, rmarkdown, testthat (>= 3.0.0)
shiny, plotly, ggplot2, knitr, rmarkdown, roxygen2, rsdmx,
plotrix, Cairo, testthat, tidyr, devtools, covr
knitr, rmarkdown, devtools, plotly, ggplot2 (>= 2.2.1),
plotrix, shiny, tidyr
knitr, rmarkdown, devtools, plotly, ggplot2 (>= 3.3.3),
plotrix, shiny
knitr, rmarkdown, devtools, plotly, ggplot2 (>= 3.3.3),
shiny, tidyr, curl
knitr, rmarkdown, devtools, plotly, ggplot2 (>= 3.3.3),
shiny, curl
R.rsp, knitr, MCMCpack, rmarkdown, RColorBrewer, reshape2
knitr, MCMCpack, rmarkdown, RColorBrewer, reshape2
knitr, rmarkdown, microbenchmark, optR, pcg
Seurat (>= 3.0.0), readr, viridis, phateR
Rpvt, Rrelperm, knitr, rmarkdown, testthat, ggplot2, dplyr,
tidyr
MASS, polynom, sfsmisc (>= 1.0-20), Matrix
MASS, Bessel, polynom, sfsmisc (>= 1.0-20), Matrix
PairViz, scagnostics, rgl, grid, MASS, rggobi, RGtk2, hexbin,
RDRToolbox, vegan
PairViz, scagnostics, rgl, grid, MASS, rggobi, RGtk2, hexbin,
RDRToolbox, vegan, RnavGraphImageData
PairViz, scagnostics, rgl, grid, MASS, rggobi, RGtk2, hexbin,
RDRToolbox, vegan, RnavGraphImageData, png, Rgraphviz
PairViz, scagnostics, rgl, MASS, hexbin, RDRToolbox, vegan,
RnavGraphImageData, png, Rgraphviz
PairViz, MASS, hexbin, RDRToolbox, vegan, RnavGraphImageData,
png, Rgraphviz
knitr, rmarkdown, testthat, ggplot2, googlesheets
knitr, rmarkdown, testthat, ggplot2, irtoys
dendextend, ggdendro, ggplot2, leaflet, plotly, RColorBrewer,
reshape, shiny, shinydashboard
dendextend, ggdendro, ggplot2, leaflet, plotly, RColorBrewer,
shiny, shinydashboard, testthat
dendextend, DT, ggdendro, ggplot2, leaflet, plotly,
RColorBrewer, shiny, shinydashboard, testthat
dendextend, DT, gdalUtils, ggdendro, ggplot2, leaflet,
plotly, RColorBrewer, shiny, shinydashboard, testthat
ggplot2, rstan, metaBMA, testthat, vdiffr, knitr, rmarkdown
ggplot2, parallel, rstan, metaBMA, testthat, vdiffr, knitr,
rmarkdown
parallel, rstan, metaBMA, testthat, vdiffr, knitr, rmarkdown,
covr
parallel, ggplot2, flexsurv, testthat, vdiffr, knitr,
rmarkdown
parallel, testthat, vdiffr, knitr, rmarkdown, covr
testthat, knitr, rmarkdown, jsonlite, httr, stringr
testthat, dplyr, knitr, pkgdown, rmarkdown, covr, codemetar
knitr, rmarkdown, mlogit, vdiffr, testthat (>= 3.0.0)
knitr, rmarkdown, mlogit, testthat (>= 3.0.0), covr
testthat, knitr, rmarkdown, ggplot2, magrittr, ggpubr
knitr, vegan, dplyr, kableExtra, rmarkdown
knitr, vegan, dplyr, kableExtra, soundgen
knitr, rmarkdown, testthat, ggplot2, ggtern, magrittr, tidyr
testthat, spelling, knitr, covr, dplyr, sf, rgeos,
rnaturalearth
rmarkdown, knitr, e1071, testthat (>= 3.0.0)
igraph, knitr, rmarkdown, testthat (>= 3.0.0)
bfast, knitr, rmarkdown, roxygen2, testthat, spelling, vcr
knitr, nlme, shiny, tcltk, testthat, devtools, covr,
rmarkdown, SnakeCharmR, rSymPy, dplyr, tidyr, tibble, curl
knitr, nlme, shiny, tcltk, testthat, devtools, covr,
rmarkdown, SnakeCharmR, rSymPy, dplyr, tidyr, tibble, curl,
ggplot2, gridExtra, microbenchmark, scales, stringi, htmltools
knitr, nlme, shiny, tcltk, testthat, devtools, covr,
rmarkdown, SnakeCharmR, rSymPy, dplyr, tidyr, tibble, curl,
ggplot2, gridExtra, microbenchmark, scales, stringi, htmltools,
reticulate
knitr, DT, nlme, shiny, tcltk, testthat, usethis, devtools,
covr, rmarkdown, SnakeCharmR, dplyr (>= 0.8.0), tidyr, tibble,
curl, gridExtra, microbenchmark, scales, stringi, htmltools,
reticulate, rlang, installr
knitr, DT, data.table, nlme, shiny, tcltk, testthat, usethis,
devtools, covr, rmarkdown, SnakeCharmR, dplyr (>= 0.8.0),
tidyr, tibble, curl, gridExtra, microbenchmark, scales,
stringi, htmltools, reticulate, rlang, installr
knitr, DT, data.table (>= 1.12.4), nlme, shiny, tcltk,
testthat, usethis, devtools, covr, rmarkdown, SnakeCharmR,
dplyr (>= 0.8.0), tidyr, tibble, curl, gridExtra,
microbenchmark, scales, stringi, htmltools, reticulate, rlang,
installr
DT, data.table (>= 1.12.4), nlme, shiny, tcltk, testthat,
usethis, devtools, covr, rmarkdown, SnakeCharmR, dplyr (>=
0.8.0), tidyr, tibble, curl, gridExtra, microbenchmark, scales,
stringi, htmltools, reticulate, rlang, installr, learnr,
remotes, crayon, xgxr, digest, vdiffr, ggrepel
spelling, Matrix, DT, covr, crayon, curl, data.table (>=
1.12.4), devtools, digest, dplyr (>= 0.8.0), ggrepel,
gridExtra, htmltools, knitr, learnr, microbenchmark, nlme,
remotes, rlang, rmarkdown, scales, shiny, stringi, symengine,
testthat, tidyr, usethis, vdiffr, xgxr, pillar, tibble,
rsconnect, patchwork
spelling, Matrix, DT, covr, crayon, curl, data.table (>=
1.12.4), digest, dplyr (>= 0.8.0), ggrepel, gridExtra,
htmltools, knitr, learnr, microbenchmark, nlme, remotes, rlang,
rmarkdown, scales, shiny, stringi, symengine, testthat, tidyr,
usethis, vdiffr, xgxr, pillar, tibble, units (>= 0.6-0),
rsconnect, devtools, patchwork
testthat, knitr, rmarkdown, covr, scales, devtools
knitr, rmarkdown, testthat, devtools, pkgload, Matrix
devtools, exams, knitr, Matrix, pkgload, rmarkdown, igraph,
testthat, unix, Rmpfr
devtools, exams, knitr, Matrix, pkgload, rmarkdown, igraph,
testthat (>= 2.1.0), unix, Rmpfr
devtools, exams, knitr, Matrix, pkgload, rmarkdown, igraph,
testthat
nloptr, FNN, MASS, dfoptim, DEoptim, lhs, rgl, grDevices,
scales
nloptr, FNN, MASS, dfoptim, DEoptim, lhs, rgl, grDevices,
scales, numDeriv, pracma, reshape2, data.table
knitr, rmarkdown, microbenchmark, pander, geoR, RandomFields
knitr, testthat, shiny, mvtnorm, reshape2
knitr, testthat, shiny, mvtnorm, reshape2, caret, ggplot2
caret, covr, ggplot2, knitr, mvtnorm, numDeriv, reshape2,
shiny, testthat
abind, caret, covr, ggplot2, knitr, mvtnorm, numDeriv,
reshape2, shiny, testthat
abind, caret, covr, ggplot2, knitr, mvtnorm, numDeriv,
reshape2, shiny, testthat, tmbstan
abind, caret, covr, ggplot2, knitr, mvtnorm, numDeriv,
reshape2, shiny, testthat, tmbstan, usethis
abind, caret, covr, ggplot2, Gmisc, knitr, mvtnorm, numDeriv,
reshape2, shiny, testthat, tmbstan, usethis
rmarkdown, knitr, httptest, ggplot2, testthat
knitr, rmarkdown, testthat (>= 3.0.0), cowplot, ggplot2,
ggthemes, Matrix, uwot
CIARA, rmarkdown, testthat (>= 3.0.0), knitr
knitr, rmarkdown, R.rsp, testthat (>= 2.1.0)
covr, knitr, rmarkdown, R.rsp, testthat (>= 2.1.0)
testthat, knitr, rmarkdown, microbenchmark, glasso, pkgdown
rlang, Seurat, ggplot2, tidyr, dplyr, colorspace, viridis,
pbapply, patchwork, Nebulosa, ggbeeswarm, scales, stringr,
Matrix (>= 1.3.3), rmarkdown, knitr, purrr, testthat (>=
3.0.0), SeuratObject, qpdf, covr, circlize, ComplexHeatmap,
ggrepel, forcats, svglite, ggrastr, ggtext, pheatmap, ggExtra,
ggplotify, scattermore, ggdist, tibble, plyr, graphics,
magrittr, ggridges, ggsignif, infercnv, rjags, rgdal,
assertthat
Seurat, ggplot2, patchwork, dplyr, tidyr, tibble, magrittr,
stringr, assertthat, viridis, circlize, colorspace,
ComplexHeatmap, ggbeeswarm, ggdist, ggExtra, ggplotify,
ggrastr, ggrepel, ggridges, ggsignif, graphics, Nebulosa,
pheatmap, plyr, rlang, scales, scattermore, covr, forcats,
infercnv, knitr, Matrix, purrr, qpdf, rgdal, rjags, rmarkdown,
svglite, testthat (>= 3.0.0)
assertthat, circlize, colorspace, covr, ComplexHeatmap,
dplyr, ggbeeswarm, ggdist, ggExtra, ggplot2, ggplotify,
ggrastr, ggrepel, ggridges, ggsignif, graphics, magrittr,
Nebulosa, patchwork, pheatmap, plyr, rlang, scales,
scattermore, Seurat, tibble, tidyr, forcats, infercnv, knitr,
Matrix, purrr, qpdf, rgdal, rjags, rmarkdown, stringr, svglite,
ggalluvial, testthat (>= 3.0.0), viridis
assertthat, circlize, colorspace, covr, ComplexHeatmap,
dplyr, ggbeeswarm, ggdist, ggExtra, ggplot2, ggplotify,
ggrastr, ggrepel, ggridges, ggsignif, graphics, magrittr,
Nebulosa, patchwork, pheatmap, plyr, rlang, scales,
scattermore, Seurat, tibble, tidyr, forcats, infercnv, knitr,
Matrix, purrr, qpdf, rgdal, rjags, rmarkdown, stringr, svglite,
ggalluvial, testthat (>= 3.0.0), viridis, UCell (>= 2.0)
testthat (>= 3.0.0), knitr, tidyr, rmarkdown
maptools, testthat, grDevices, rJava (>= 0.5-0)
maptools, testthat, grDevices, rJava (>= 0.5-0), knitr,
rmarkdown, ncdf4, rgdal, graphics, sp
maptools, testthat, grDevices, knitr, rmarkdown, ncdf4,
rgdal, graphics, sp
maptools, testthat, grDevices, knitr, rmarkdown, markdown,
ncdf4, rgdal, graphics, sp, rJava, gbm
knitr, testthat, devtools, roxygen2, markdown
BGLR, float, knitr, rmarkdown, ggplot2, Matrix, parallel,
reshape, viridis, RSpectra
BGLR, float, knitr, rmarkdown, ggplot2, parallel, reshape,
viridis
BGLR, float, knitr, rmarkdown, ggplot2, parallel, reshape2,
viridis
BGLR, float, knitr, rmarkdown, ggplot2, parallel, reshape2,
viridis, igraph
BGLR, Matrix, float, knitr, rmarkdown, ggplot2, parallel,
reshape2, viridis, igraph
boot, colorspace, gridBase, pdf2, randomNames, sn
boot, colorspace, doMC, gridBase, pdf2, randomNames (>=
0.0-3), sn, snow
boot, colorspace, multicore, gridBase, pdf2, randomNames (>=
0.0-3), sn, snow
doMC, doMPI, doSMP, doSNOW, doRedis, multicore, pdf2, sn,
snow
doMC, doMPI, doParallel, doRedis, doSNOW, multicore,
parallel, pdf2, RSQLite, sn, snow
doMC, doMPI, doParallel, doRedis, doSNOW, iterators,
multicore, parallel, pdf2, RSQLite, sn, snow
randomNames (>= 0.0-5), parallel, SGPdata (>= 8.0-0)
knitr, rmarkdown, gridExtra (>= 2.3), here, parallel,
lightgbm (>= 2.1)
coda, ellipse, knitr, rmarkdown, viridis
coda, ellipse, knitr, rmarkdown, tidyverse, viridis
survey, readr, dplyr, magrittr, RCurl, timeDate, readxl,
convey
survey, readr, dplyr, magrittr, projmgr, httr, RCurl,
timeDate, readxl, convey
tidyverse, survey, readr, dplyr, magrittr, projmgr, httr,
RCurl, timeDate, readxl, convey
convey, dplyr, httr, lavaan.survey, magrittr, projmgr, RCurl,
readr, readxl, srvyr, surf, survey, tidyverse, timeDate
knitr, rmarkdown, testthat (>= 2.1.0), data.table, covr
caret, covr, glmnet, knitr, rmarkdown, spelling, testthat (>=
2.1.0)
caret, covr, glmnet, ggplot2, stringr, scales, tidyr, dplyr,
bench, knitr, rmarkdown, spelling, testthat (>= 2.1.0)
bench, caret, covr, dplyr, knitr, rmarkdown, scales,
spelling, stringr, testthat (>= 2.1.0), tidyr, vdiffr
lattice, foreign, gdata, car, dglm, gnm, MASS, npmlreg,
survival
SMITIDstruct, knitr, shiny, testthat (>= 3.0.0)
testthat, knitr, BiocStyle, rmarkdown, biomaRt
testthat, knitr, rmarkdown, biomaRt,
SNPlocs.Hsapiens.dbSNP144.GRCh38,
MafDb.1Kgenomes.phase3.GRCh38, BSgenome.Hsapiens.NCBI.GRCh38,
GenomicScores, BSgenome
testthat, knitr, rmarkdown, biomaRt, VariantAnnotation,
GenomicRanges, IRanges, S4Vectors, org.Hs.eg.db,
TxDb.Hsapiens.UCSC.hg19.knownGene,
SNPlocs.Hsapiens.dbSNP144.GRCh38,
MafDb.1Kgenomes.phase3.GRCh38, BSgenome.Hsapiens.NCBI.GRCh38,
GenomicScores, BSgenome, BiocStyle
testthat, rmarkdown, knitr, hexbin, shinycssloaders, shinyBS,
shinyjs, shinyjqui
ggplot2, gridExtra, knitr, Matrix, rmarkdown, SeuratObject,
usethis
knitr, rmarkdown, dplyr, RColorBrewer, actuar, poisson,
ChainLadder
knitr, rmarkdown, dplyr, RColorBrewer, actuar, ChainLadder
base, RBGL, XML, graphics, png, graph, EBImage, igraph
rsm, tgp, randomForest, mlegp, FrF2, DoE.wrapper, AlgDesign,
lhs
rsm, tgp, randomForest, mlegp, FrF2, DoE.wrapper, AlgDesign,
lhs, cmaes, pso, rgenoud, DEoptim, subplex, minqa
rsm, earth, DiceKriging, kernlab, penalizedSVM, qrnn, mlegp,
tgp, randomForest, fields, FrF2, DoE.wrapper, AlgDesign, lhs,
cmaes, pso, rgenoud, DEoptim, subplex, minqa, rgl, rgp,
twiddler, mco, MASS
rsm, earth, DiceKriging, kernlab, penalizedSVM, qrnn, mlegp,
tgp, randomForest, fields, FrF2, DoE.wrapper, AlgDesign, lhs,
cmaes, pso, rgenoud, DEoptim, subplex, minqa, rgl, rgp,
twiddler, mco, MASS, gtools
AlgDesign, BB, cmaes, DEoptim, dfoptim, DiceKriging,
DoE.wrapper, earth, fields, FrF2, GenSA, ggplot2, gtools,
lattice, lhs, lme4, MASS, mco, minqa, mlegp, monmlp, nloptr,
kernlab, penalizedSVM, pso, qrnn, randomForest, rgenoud, rgl,
rgp, rsm, tgp, twiddler
AlgDesign, BB, cmaes, DEoptim, dfoptim, DiceKriging,
DoE.wrapper, earth, fields, FrF2, GenSA, ggplot2, gtools,
lattice, lhs, lme4, MASS, mco, minqa, mlegp, monmlp, nloptr,
kernlab, penalizedSVM, pso, qrnn, randomForest, rgenoud, rgl,
rgp (>= 0.3-4), rsm, tgp, twiddler
BB, cmaes, DEoptim, dfoptim, DiceKriging, DoE.wrapper, e1071,
earth, fields, FrF2, GenSA, ggplot2, gtools, kernlab, lattice,
lhs, lme4, minqa, mlegp, monmlp, nloptr, neuralnet,
penalizedSVM, plotmo, pso, qrnn, rgenoud, rgp (>= 0.3-4), tgp
BB, twiddler, rgl, cmaes, DEoptim, dfoptim, DiceKriging,
DoE.wrapper, e1071, earth, fields, FrF2, GenSA, ggplot2,
gtools, kernlab, lattice, lhs, lme4, minqa, mlegp, monmlp,
nloptr, neuralnet, penalizedSVM, plotmo, pso, qrnn, rgenoud,
rgp (>= 0.3-4), tgp
car, testthat, batchtools, knitr, rmarkdown, readr, party
testthat, batchtools, knitr, rmarkdown, readr
batchtools, car, farff, knitr, microbenchmark, rmarkdown,
OpenML, party, RColorBrewer, readr, testthat
car, plotly, testthat, batchtools, knitr, microbenchmark,
rmarkdown, readr, party, babsim.hospital, RColorBrewer
babsim.hospital, batchtools, car, farff, knitr,
microbenchmark, rmarkdown, OpenML, party, RColorBrewer, readr,
testthat
farff, knitr, rmarkdown, rpart, testthat
farff, knitr, rmarkdown, rpart, testthat, xgboost
e1071, MASS, class, nnet, glmnet, randomForest
caret, tidymodels, e1071, C50, kernlab, testthat, doParallel,
tidyverse, survival, xgboost, covr, kknn, randomForest, ranger,
MASS, nlme, knitr, rmarkdown
caret, tidymodels, e1071, C50, kernlab, testthat, doParallel,
tidyverse, factoextra, survival, covr, kknn, randomForest,
ranger, MASS, nlme, knitr, rmarkdown
caret, tidymodels, e1071, C50, kernlab, testthat, doParallel,
tidyverse, factoextra, survival, xgboost, covr, kknn,
randomForest, ranger, MASS, nlme, knitr, rmarkdown
testthat, knitr, rmarkdown, ggplot2, gganimate, gifski
AER, testthat (>= 3.0.0), knitr, rmarkdown
AER, bslib, foreign, glue, knitr, psych, reactable, readxl,
rmarkdown, scales, shiny, shinyjs, shinyWidgets, testthat (>=
3.0.0), tools, utils
R.rsp, EMMREML, quadprog, UsingR, glmnet, leaps, Matrix
INLA, knitr, rmarkdown, readstata13, gridExtra, R.rsp
INLA, knitr, rmarkdown, readstata13, patchwork, rdhs, R.rsp
INLA, knitr, rmarkdown, readstata13, patchwork, rdhs, R.rsp,
fields
INLA, knitr, rmarkdown, readstata13, patchwork, rdhs, R.rsp,
fields, sae, dplyr, tidyr
testthat, mvtnorm, spelling, Weighted.Desc.Stat, knitr,
rmarkdown, bookdown, ggpubr
knitr, rmarkdown, testthat (>= 3.0.0), kableExtra
MASS, methods, Zelig, descr, xtable, foreign, MCMCpack,
sandwich, data.table, plyr, ggplot2, maptools
MASS, methods, Zelig, descr, xtable, foreign, MCMCpack,
sandwich, plyr, ggplot2
testthat, devtools, scales, extrafont, gtable, knitr
knitr, markdown, rmarkdown, mixOmics, CascadeData
knitr, rmarkdown, htmlTable, gridExtra, shiny, shinyalert
knitr, rmarkdown, htmlTable, gridExtra, shiny, shinyalert,
R.matlab, foreign, readxl, data.table
shiny, shinyjs, shinyalert, shinyMatrix, shinyBS, spreadr,
animation, R.matlab, foreign, readxl, data.table
knitr, rmarkdown, numDeriv, purrr, rlang, testthat (>=
3.0.0), BB, nleqslv, splines2
testthat, knitr, rmarkdown, SnowballC, XML, mgcv
testthat, SummarizedExperiment, MAST, DESeq2, MetaDE
testthat, loomR, S4Vectors, SummarizedExperiment,
SingleCellExperiment, MAST, DESeq2
testthat, loomR, phateR, S4Vectors, SummarizedExperiment,
SingleCellExperiment, MAST, DESeq2
gdata, VGAM, tclust, testthat, caret, ranger, loomR, phateR,
S4Vectors, SummarizedExperiment, SingleCellExperiment, MAST,
DESeq2
gdata, VGAM, tclust, testthat, caret, ranger, loomR, phateR,
S4Vectors, made4, SummarizedExperiment, SingleCellExperiment,
MAST, DESeq2, destiny
loomR, testthat, hdf5r, S4Vectors, SummarizedExperiment,
SingleCellExperiment, MAST, DESeq2, GenomicRanges,
GenomeInfoDb, IRanges, rtracklayer
loomR, testthat, hdf5r, S4Vectors, SummarizedExperiment,
SingleCellExperiment, MAST, DESeq2, GenomicRanges,
GenomeInfoDb, IRanges, rtracklayer, monocle, Biobase, VGAM
loomR, testthat, hdf5r, S4Vectors, SummarizedExperiment,
SingleCellExperiment, MAST, DESeq2, BiocGenerics,
GenomicRanges, GenomeInfoDb, IRanges, rtracklayer, monocle,
Biobase, VGAM
loomR, SDMTools, testthat, hdf5r, S4Vectors,
SummarizedExperiment, SingleCellExperiment, MAST, DESeq2,
BiocGenerics, GenomicRanges, GenomeInfoDb, IRanges,
rtracklayer, monocle, Biobase, VGAM
loomR, SDMTools, testthat, hdf5r, S4Vectors,
SummarizedExperiment, SingleCellExperiment, MAST, DESeq2,
BiocGenerics, GenomicRanges, GenomeInfoDb, IRanges,
rtracklayer, monocle, Biobase, VGAM, limma, metap
loomR, testthat, hdf5r, S4Vectors, SummarizedExperiment,
SingleCellExperiment, MAST, DESeq2, BiocGenerics,
GenomicRanges, GenomeInfoDb, IRanges, rtracklayer, Rfast2,
monocle, Biobase, VGAM, limma, metap
loomR, ape, testthat, hdf5r, S4Vectors, SummarizedExperiment,
SingleCellExperiment, MAST, DESeq2, BiocGenerics,
GenomicRanges, GenomeInfoDb, IRanges, rtracklayer, Rfast2,
monocle, Biobase, VGAM, limma, metap
ape, rsvd, testthat, hdf5r, S4Vectors, SummarizedExperiment,
SingleCellExperiment, MAST, DESeq2, BiocGenerics,
GenomicRanges, GenomeInfoDb, IRanges, rtracklayer, Rfast2,
monocle, Biobase, VGAM, limma, metap, enrichR, mixtools
ape, rsvd, testthat, hdf5r, S4Vectors, SummarizedExperiment,
SingleCellExperiment, MAST, DESeq2, BiocGenerics,
GenomicRanges, GenomeInfoDb, IRanges, rtracklayer, Rfast2,
monocle, Biobase, VGAM, limma, metap, enrichR, mixtools,
ggrastr
ape, rsvd, testthat, hdf5r, S4Vectors, SummarizedExperiment,
SingleCellExperiment, MAST, DESeq2, BiocGenerics,
GenomicRanges, GenomeInfoDb, IRanges, rtracklayer, Rfast2,
monocle, Biobase, VGAM, limma, metap, enrichR, mixtools,
ggrastr, data.table, R.utils
grDevices, cellWise, robustHD, tidyverse, knitr, MASS,
rmarkdown
quantmod, MASS, TTR, testthat, sandwich, knitr
xtable, xts, quantmod, MASS, TTR, testthat, sandwich, knitr
xtable, xts, timeSeries, quantmod, MASS, TTR, testthat,
sandwich, knitr
xtable, xts, timeSeries, quantmod, MASS, TTR, testthat,
sandwich, txtplot, knitr
testthat (>= 2.1.0), knitr, rmarkdown, AER, spelling, formatR
data.table, deltaPlotR, difNLR (>= 1.3.2), DT, ggdendro,
gridExtra, knitr, latticeExtra, ltm, msm, plotly, purrr,
rmarkdown, shiny (>= 1.0.3), shinyBS, shinydashboard, shinyjs,
stringr, VGAM, xtable
data.table, deltaPlotR, difNLR (>= 1.3.2), testthat (>=
3.0.0), DT, ggdendro, gridExtra, knitr, latticeExtra, ltm,
plotly, rmarkdown, shiny (>= 1.0.3), shinyBS, shinydashboard,
shinyjs, stringr, VGAM, xtable
data.table, deltaPlotR, difNLR (>= 1.4.1), testthat (>=
3.0.0), DT, ggdendro, gridExtra, knitr, latticeExtra, ltm,
plotly, rmarkdown, shiny (>= 1.0.3), shinyBS, shinydashboard,
shinyjs, stringr, VGAM, xtable
knitr, MplusAutomation (>= 0.7), rmarkdown
car, data.table, ggplot2, kableExtra, knitr, readxl,
reshape2, rmarkdown, R.rsp
car, data.table, GGally, ggplot2, kableExtra, knitr, readxl,
reshape2, rmarkdown, tidyr, tidyverse, R.rsp
testthat (>= 2.1.0), chromVAR, SummarizedExperiment,
TFBSTools, motifmatchr, BSgenome.Hsapiens.UCSC.hg19,
EnsDb.Hsapiens.v75, JASPAR2018
testthat (>= 2.1.0), chromVAR, SummarizedExperiment,
TFBSTools, motifmatchr, Biostrings, BSgenome
testthat (>= 2.1.0), chromVAR, SummarizedExperiment,
TFBSTools, motifmatchr, BSgenome, shiny, miniUI
testthat (>= 2.1.0), chromVAR, SummarizedExperiment,
TFBSTools, motifmatchr, BSgenome, shiny, miniUI, rtracklayer,
biovizBase, Biostrings
Seurat (>= 4.0.6), ggforce, ggrepel, ggseqlogo, testthat (>=
2.1.0), chromVAR, SummarizedExperiment, TFBSTools, motifmatchr,
BSgenome, shiny, miniUI, rtracklayer, biovizBase, Biostrings,
lsa, qlcMatrix
multgee(>= 1.2), gee, knitr, rmarkdown, bookdown
bookdown, gee, knitr, markdown, multgee(>= 1.2)
bookdown, gee, knitr, markdown, multgee (>= 1.2), testthat,
covr
bookdown, covr, gee, knitr, multgee (>= 1.2), rmarkdown,
testthat
knitr, rmarkdown, printr, bookdown, testthat
knitr, dplyr, ggplot2, shiny, doMPI, copula, extraDistr
knitr, dplyr, ggplot2, shiny, doMPI, copula, extraDistr,
rmarkdown
knitr, ggplot2, tidyr, shiny, doMPI, copula, extraDistr,
rmarkdown
knitr, ggplot2, tidyr, shiny, doMPI, copula, extraDistr,
RPushbullet, rmarkdown
knitr, ggplot2, tidyr, shiny, doMPI, copula, extraDistr,
RPushbullet, renv, rmarkdown
knitr, ggplot2, tidyr, shiny, doMPI, copula, extraDistr,
renv, rmarkdown
knitr, ggplot2, tidyr, purrr, shiny, doMPI, copula,
extraDistr, renv, rmarkdown
covr, knitr, rmarkdown, testthat (>= 2.1.0), tidyr, ggplot2,
sandwich
knitr (>= 1.13), rmarkdown (>= 0.9.6), testthat
knitr, rmarkdown, printr, bookdown, nlme, reshape2, testthat
testthat (>= 2.1.0), splines, R.rsp, Matrix
fields, rmarkdown, flexdashboard, shiny, crosstalk,
htmltools, viridis, lme4, ggplot2, INLA, knitr
fields, rmarkdown, flexdashboard, shiny, crosstalk,
htmltools, viridis, lme4, ggplot2, INLA, rgdal, rgeos, knitr,
bezier
knitr, rmarkdown, testthat, tidyverse, readr, ggpubr, covr
knitr, rmarkdown, testthat, tidyverse, readr, ggpubr, covr,
cccrm
knitr, rmarkdown, testthat, tidyverse, readr, covr, mgcv,
ggeffects, deming
spelling, shiny, ggplot2, testthat, markdown, knitr,
rmarkdown, prettydoc, kableExtra
spelling, shiny, ggplot2, purrrlyr, testthat, markdown,
knitr, rmarkdown, prettydoc, kableExtra
spelling, shiny, ggplot2, purrrlyr, testthat, markdown,
knitr, rmarkdown, prettydoc, Kendall, kableExtra, covr, readxl,
glue, janitor, rclipboard
spelling, shiny, shinytest, stringr, rvest, xml2, ggplot2,
purrrlyr, testthat, markdown, knitr, rmarkdown, prettydoc,
Kendall, kableExtra, covr, readxl, glue, janitor, rclipboard
spelling, shiny, shinytest, stringr, rvest, xml2, ggplot2,
purrrlyr, testthat, markdown, knitr, rmarkdown, cleanrmd,
Kendall, kableExtra, covr, readxl, glue, janitor, rclipboard
lattice, knitr, MASS, agricolae, car, gmodels, leaps, mosaic
lattice, multcomp, car, leaps, CCA, Hmisc
MASS, lattice, multcomp, car, leaps, CCA, Hmisc
CCA, Hmisc, MASS,agricolae, car, gmodels, knitr, lattice,
leaps, mosaic, multcomp
CCA, Hmisc, MASS, agricolae, car, gmodels, knitr, lattice,
leaps, mosaic, multcomp
knitr, rmarkdown, kableExtra, sdcHierarchies, testthat
stringr, knitr, rmarkdown, ROCR, randomForest, caret, dplyr
ggplot2, VGAM, shinyjs, ggExtra, grid, gridExtra
testthat, covr, knitr, rmarkdown, markdown
testthat, covr, knitr, rmarkdown, markdown, soilDB
testthat, covr, knitr, rmarkdown, markdown, soilDB, ape
knitr, rstan, DropletUtils, rmarkdown, formatR
networkD3, ggplot2, grDevices, Rgraphviz, knitr, rmarkdown,
r2cytoscape, BiocStyle, Biobase, graphite, hgu95av2.db, ALL,
mvtnorm, org.Hs.eg.db
AnnotationDbi, networkD3, ggplot2, grDevices, Rgraphviz,
knitr, rmarkdown, r2cytoscape, BiocStyle, Biobase, graphite,
hgu95av2.db, ALL, mvtnorm, org.Hs.eg.db
fastshp, knitr, Matrix, RColorBrewer, rgdal, testthat,
tkrplot
covr, fastshp, knitr, Matrix, RColorBrewer, rgdal, rmarkdown,
testthat, tkrplot
covr, fastshp, knitr, Matrix, png, RColorBrewer, rgdal,
rmarkdown, testthat, tkrplot
covr, fastshp, knitr, Matrix, png, rgdal, rmarkdown,
testthat, tkrplot
covr, fastshp, knitr, Matrix, png, rgdal, rmarkdown, tcltk,
testthat, tkrplot
covr, fastshp, knitr, Matrix, png, rgdal, rmarkdown, snow,
tcltk, testthat, tkrplot
covr, fastshp, knitr, Matrix, png, rgdal, rgenoud, rmarkdown,
snow, tcltk, testthat (>= 1.0.2), tkrplot
archivist, igraph, knitr, raster, rmarkdown, testthat
archivist, igraph, knitr, raster, rmarkdown, testthat,
tkrplot
archivist, devtools, hunspell, igraph, knitr, raster,
rmarkdown, testthat, tkrplot
knitr, RandomFields, raster, rmarkdown, testthat, tkrplot
covr, knitr, rmarkdown, testthat, spelling
covr, knitr, rmarkdown, testthat, SpaDES.addins, spelling
covr, knitr, rmarkdown, testthat, SpaDES.addins
covr, hunspell, knitr, Matrix, png, RColorBrewer (>= 1.1-2),
rgdal, rgenoud, rmarkdown, SpaDES.tools, testthat (>= 1.0.2),
tkrplot
covr, hunspell, knitr, Matrix, png, RColorBrewer (>= 1.1-2),
rgdal, rgenoud, rmarkdown, SpaDES.tools, testthat (>= 1.0.2)
covr, hunspell, knitr, Matrix, magrittr, microbenchmark, png,
RColorBrewer (>= 1.1-2), rgdal, rgenoud, sf, rmarkdown,
testthat (>= 1.0.2)
covr, hunspell, knitr, Matrix, magrittr, microbenchmark, png,
RColorBrewer (>= 1.1-2), rgdal, rgenoud, sf, SpaDES.tools (>=
0.2.0), rmarkdown, testthat (>= 1.0.2)
covr, knitr, Matrix, magrittr, microbenchmark, png,
RandomFields (>= 3.1.24), RColorBrewer (>= 1.1-2), rgdal,
rgenoud, sf, SpaDES.tools (>= 0.2.0), rmarkdown, testthat (>=
1.0.2)
archivist, covr, devtools, knitr, Matrix, magrittr,
microbenchmark, png, RandomFields (>= 3.1.24), RColorBrewer (>=
1.1-2), rgdal, rgenoud, sf, SpaDES.tools (>= 0.2.0), rmarkdown,
testthat (>= 1.0.2)
archivist, covr, devtools, knitr, Matrix, magrittr,
microbenchmark, png, RandomFields (>= 3.3.4), RColorBrewer (>=
1.1-2), rgdal, rgenoud, sf, SpaDES.tools (>= 0.2.0), rmarkdown,
testthat (>= 1.0.2)
archivist, covr, devtools, future.callr, knitr, magrittr,
microbenchmark, png, RandomFields (>= 3.3.4), RColorBrewer (>=
1.1-2), rgdal, rstudioapi, sf, SpaDES.tools (>= 0.2.0),
rmarkdown, testthat (>= 1.0.2)
codetools, covr, devtools, DiagrammeR (>= 0.8.2), future,
future.callr, httr, knitr, logging, magrittr, microbenchmark,
png, RandomFields (>= 3.3.4), RColorBrewer (>= 1.1-2), rgdal,
rstudioapi, sf, SpaDES.tools (>= 0.2.0), rmarkdown, testthat
(>= 1.0.2)
codetools, covr, devtools, DiagrammeR (>= 0.8.2), future,
future.callr, httr, knitr, logging, magrittr, microbenchmark,
png, RandomFields (>= 3.3.4), RColorBrewer (>= 1.1-2), rgdal,
rstudioapi, sf, SpaDES.tools (>= 0.2.0), rmarkdown, testthat
(>= 1.0.2), usethis (>= 1.6.0)
codetools, covr, DiagrammeR (>= 0.8.2), dplyr, future,
future.callr, ggplot2, googledrive, httr, knitr, logging,
magrittr, pkgload, png, RandomFields (>= 3.3.4), RColorBrewer
(>= 1.1-2), rgdal, roxygen2, rstudioapi, sp, SpaDES.tools (>=
0.2.0), rmarkdown, tcltk, testthat (>= 1.0.2)
codetools, covr, devtools, DiagrammeR (>= 0.8.2), future,
future.callr, googledrive, httr, knitr, logging, magrittr,
microbenchmark, png, RandomFields (>= 3.3.4), RColorBrewer (>=
1.1-2), rgdal, rstudioapi, sf, SpaDES.tools (>= 0.2.0),
rmarkdown, testthat (>= 1.0.2)
codetools, covr, devtools, DiagrammeR (>= 0.8.2), future,
future.callr, googledrive, httr, knitr, logging, magrittr,
microbenchmark, png, RandomFields (>= 3.3.4), RColorBrewer (>=
1.1-2), rgdal, rstudioapi, sf, sp, SpaDES.tools (>= 0.2.0),
rmarkdown, testthat (>= 1.0.2)
codetools, covr, DiagrammeR (>= 0.8.2), dplyr, future,
future.callr, googledrive, httr, knitr, logging, magrittr, png,
RandomFields (>= 3.3.4), RColorBrewer (>= 1.1-2), rgdal,
rstudioapi, sp, SpaDES.tools (>= 0.2.0), rmarkdown, tcltk,
testthat (>= 1.0.2)
codetools, covr, DiagrammeR (>= 0.8.2), dplyr, future,
future.callr, ggplot2, googledrive, httr, knitr, logging,
magrittr, png, RandomFields (>= 3.3.4), RColorBrewer (>=
1.1-2), rgdal, rstudioapi, sp, SpaDES.tools (>= 0.2.0),
rmarkdown, tcltk, testthat (>= 1.0.2)
codetools, covr, DiagrammeR (>= 0.8.2), dplyr, future,
future.callr, ggplot2, googledrive, httr, knitr, logging,
magrittr, NLMR (>= 1.1.1), pkgload, png, RColorBrewer (>=
1.1-2), rgdal, rmarkdown, roxygen2, rstudioapi, sp,
SpaDES.tools (>= 0.2.0), tcltk, terra, testthat (>= 1.0.2)
DEoptim (>= 2.2-4), dplyr (>= 0.5.0), hunspell, knitr,
microbenchmark, parallel, profvis, RColorBrewer (>= 1.1-2),
rgdal, rgeos, rmarkdown, testthat (>= 1.0.2)
DEoptim (>= 2.2-4), dplyr (>= 0.5.0), hunspell, knitr,
microbenchmark, parallel, profvis, RColorBrewer (>= 1.1-2),
rgeos, rmarkdown, sf, testthat (>= 1.0.2), velox
DEoptim (>= 2.2-4), dplyr, gdalUtils, knitr, mgcv,
microbenchmark, profvis, RColorBrewer (>= 1.1-2), rgeos,
rmarkdown, testthat (>= 1.0.2)
DEoptim (>= 2.2-4), dplyr, gdalUtils, knitr, mgcv,
microbenchmark, profvis, RandomFields (>= 3.1.24), RColorBrewer
(>= 1.1-2), rmarkdown, testthat (>= 1.0.2)
animation, bit (>= 1.1-12), DBI, DEoptim (>= 2.2-4), dplyr,
dqrng, fasterize, ff (>= 2.2-13), ffbase (>= 0.12.3),
gdalUtils, googledrive, knitr, mgcv, RandomFields (>= 3.1.24),
RColorBrewer (>= 1.1-2), rmarkdown, sf, testthat (>= 1.0.2),
covr
DEoptim (>= 2.2-4), dplyr, fasterize, gdalUtils, knitr, mgcv,
microbenchmark, profvis, RandomFields (>= 3.1.24), RColorBrewer
(>= 1.1-2), rmarkdown, sf, testthat (>= 1.0.2)
animation, DEoptim (>= 2.2-4), dplyr, fasterize, gdalUtils,
knitr, mgcv, RandomFields (>= 3.1.24), RColorBrewer (>= 1.1-2),
rmarkdown, sf, testthat (>= 1.0.2)
animation, DEoptim (>= 2.2-4), dplyr, fasterize, ff (>=
2.2-13), ffbase (>= 0.12.3), gdalUtils, knitr, mgcv,
RandomFields (>= 3.1.24), RColorBrewer (>= 1.1-2), rmarkdown,
sf, testthat (>= 1.0.2)
animation, bit (>= 1.1-12), DBI, DEoptim (>= 2.2-4), dplyr,
dqrng, fasterize, ff (>= 2.2-13), ffbase (>= 0.12.3),
gdalUtils, googledrive, knitr, mgcv, RandomFields (>= 3.1.24),
RColorBrewer (>= 1.1-2), Require, rmarkdown, sf, testthat (>=
1.0.2), covr
animation, bit (>= 1.1-12), covr, DBI, DEoptim (>= 2.2-4),
dplyr, dqrng, fasterize, googledrive, knitr, mgcv, purrr,
RColorBrewer (>= 1.1-2), rmarkdown, sf, testthat (>= 1.0.2)
knitr, rmarkdown, testthat, e1071, survival
knitr, rmarkdown, markdown, testthat, e1071, survival, arrow
(>= 1.0.0)
testthat (>= 2.1.0), RColorBrewer, plot3D, pracma, spTimer,
maps
knitr, rmarkdown, testthat (>= 2.1.0), dplyr (>= 1.0.3),
gifski, tidyr, fields, scico, plot3D, pracma, RColorBrewer,
maps, covr
sf, RandomFields, knitr, rmarkdown, markdown
rmarkdown, markdown, knitr, testthat (>= 3.0.0)
rmarkdown, markdown, knitr, testthat (>= 3.0.0), ggplot2,
dplyr
tmap, sp, knitr, rgdal, testthat (>= 2.1.0)
tmap, sp, knitr, rgdal, rmarkdown, testthat (>= 2.99.0)
tmap, sp, knitr, rgdal, rmarkdown, testthat (>= 2.99.0), xml2
parallel, doParallel, foreach, cartography, knitr, rmarkdown
lwgeom, parallel, doParallel, foreach, cartography, knitr,
rmarkdown
testthat, knitr, rmarkdown, shiny, shinydashboard
testthat, knitr, rmarkdown, shiny, shinydashboard, formatR
testthat, knitr, rmarkdown, shiny, shinydashboard, checkmate
Rcpp, RcppEigen, BH, knitr (>= 1.15.1), rmarkdown
Rcpp, RcppEigen, BH, knitr (>= 1.15.1), rmarkdown, Matrix,
methods, rstan
Rcpp, RcppEigen, BH (>= 1.69.0), knitr (>= 1.15.1), rmarkdown
Rcpp, BH, knitr (>= 1.15.1), rmarkdown, Matrix, methods,
rstan, RcppParallel
Rcpp, BH, knitr (>= 1.15.1), rmarkdown, Matrix, methods,
rstan
lpSolve, SDaA, simPopulation, MASS, Hmisc
ggplot2, gridExtra, grid, testthat, lattice
MASS, boot, nortest, lmtest, DescTools, psych, Hmisc,
PerformanceAnalytics, reticulate, fastDummies, semTools,
semPlot, FactoMineR, FactoInvestigate, factoextra, rrcov,
methods, parallel, graphics, imputeMissings, onewaytests
knitr, rmarkdown, testthat, swCRTdesign, pwr
knitr, rmarkdown, swCRTdesign, testthat, pwr
knitr, StrathE2E2examples, testthat (>= 2.1.0)
knitr, rmarkdown, MASS, zoo, BART, grf, survRM2, TH.data,
coin, rpart
knitr, rmarkdown, MASS, zoo, BART, grf, survRM2, TH.data,
coin, rpart, testthat (>= 2.1.0)
knitr, rmarkdown, MASS, BART, randomForestSRC, grf, survRM2,
TH.data, coin, rpart, testthat (>= 2.1.0)
knitr, rmarkdown, MASS, BART, survRM2, TH.data, coin, rpart,
testthat (>= 2.1.0)
knitr, rmarkdown, MASS, BART, pROC, survRM2, TH.data,
sandwich, coin, rpart, testthat (>= 2.1.0)
knitr, rmarkdown, MASS, BART, pROC, survRM2, TH.data,
sandwich, rpart, testthat (>= 2.1.0)
knitr, rmarkdown, ggplot2, sampling, BalancedSampling, MASS,
stats, testthat
knitr, rmarkdown, ggplot2, BalancedSampling, stats, testthat,
StatMatch, laeken, prettydoc
knitr, rmarkdown, BalancedSampling, stats, testthat,
StatMatch, laeken, prettydoc, ggplot2, viridis, rgeos,
geojsonio, sf, rmapshaper
MASS, knitr, rmarkdown, ggplot2, reshape
knitr, rmarkdown, testthat, mvtnorm, numDeriv
arm, BayesTree, caret, class, e1071, earth, gam, gbm,
genefilter, ggplot2, glmnet, Hmisc, ipred, lattice, LogicReg,
MASS, mda, mlbench, nnet, parallel, party, polspline, quadprog,
randomForest, rpart, SIS, spls, stepPlr, sva
arm, caret, class, cvAUC, e1071, earth, gam, gbm, genefilter,
ggplot2, glmnet, Hmisc, ipred, lattice, LogicReg, MASS, mda,
mlbench, nloptr, nnet, parallel, party, polspline, quadprog,
randomForest, ROCR, rpart, SIS, spls, stepPlr, sva
arm, caret, class, e1071, earth, gam, gbm, genefilter,
ggplot2, glmnet, Hmisc, ipred, lattice, LogicReg, MASS, mda,
mlbench, nloptr, nnet, party, polspline, quadprog,
randomForest, ROCR, rpart, SIS, spls, stepPlr, sva
arm, bartMachine, caret, class, e1071, earth, gam, gbm,
genefilter, ggplot2, glmnet, Hmisc, ipred, lattice, LogicReg,
MASS, mda, mlbench, nloptr, nnet, party, polspline, quadprog,
randomForest, ROCR, rpart, SIS, spls, stepPlr, sva, testthat,
xgboost (>= 0.6)
arm, bartMachine, biglasso, bigmemory, caret, class, dbarts,
devtools, e1071, earth, extraTrees, gam, gbm, genefilter,
ggplot2, glmnet, Hmisc, ipred, KernelKnn, kernlab, knitr,
lattice, LogicReg, MASS, mda, mlbench, nloptr, nnet, party,
polspline, prettydoc, quadprog, randomForest, ranger,
RhpcBLASctl, ROCR, rmarkdown, rpart, SIS, speedglm, spls,
stepPlr, sva, testthat, xgboost (>= 0.6)
arm, bartMachine, biglasso, bigmemory, caret, class, dbarts,
devtools, e1071, earth, extraTrees, gam (>= 1.15), gbm,
genefilter, ggplot2, glmnet, ipred, KernelKnn, kernlab, knitr,
lattice, LogicReg, MASS, mlbench, nloptr, nnet, party,
polspline, prettydoc, quadprog, randomForest, ranger,
RhpcBLASctl, ROCR, rmarkdown, rpart, SIS, speedglm, spls, sva,
testthat, xgboost (>= 0.6)
arm, bartMachine, biglasso, bigmemory, caret, class,
devtools, e1071, earth, extraTrees, gam (>= 1.15), gbm,
genefilter, ggplot2, glmnet, ipred, KernelKnn, kernlab, knitr,
lattice, LogicReg, MASS, mlbench, nloptr, nnet, party,
polspline, prettydoc, quadprog, randomForest, ranger,
RhpcBLASctl, ROCR, rmarkdown, rpart, SIS, speedglm, spls, sva,
testthat, xgboost (>= 0.6)
arm, bartMachine, biglasso, bigmemory, caret, class,
devtools, e1071, earth, extraTrees, gbm, genefilter, ggplot2,
glmnet, ipred, KernelKnn, kernlab, knitr, lattice, LogicReg,
MASS, mlbench, nloptr, nnet, party, polspline, prettydoc,
quadprog, randomForest, ranger, RhpcBLASctl, ROCR, rmarkdown,
rpart, SIS, speedglm, spls, sva, testthat, xgboost (>= 0.6)
arm, BayesTree, caret, class, DSA, e1071, earth, gam, gbm,
genefilter, glmnet, Hmisc, ipred, LogicReg, MASS, mda, mlbench,
multicore, nnet, party, polspline, randomForest, rpart, SIS,
snow, spls, stepPlr, lattice, ggplot2
arm, BayesTree, caret, class, e1071, earth, gam, gbm,
genefilter, glmnet, Hmisc, ipred, LogicReg, MASS, mda, mlbench,
multicore, nnet, party, polspline, randomForest, rpart, SIS,
snow, spls, stepPlr, lattice, ggplot2, sva
arm, BayesTree, caret, class, e1071, earth, gam, gbm,
genefilter, ggplot2, glmnet, Hmisc, ipred, lattice, LogicReg,
MASS, mda, mlbench, nnet, parallel, party, polspline,
randomForest, rpart, SIS, spls, stepPlr, sva
knitr, rmarkdown, pwr, testthat, covr, jmvcore
knitr, rmarkdown, pwr, testthat, covr, jmvcore, spelling
knitr, rmarkdown, randomForestSRC, caret, ggplot2, ggpubr,
pec
knitr, rmarkdown, caret, ggplot2, ggpubr, pec,
randomForestSRC
knitr, rmarkdown, caret, ggplot2, ggpubr, testthat (>= 3.0.0)
distr, MASS, survival, distrEx, Matrix, splines
testthat (>= 2.1.0), knitr, ggplot2, scales, rmarkdown
knitr, covr, testthat (>= 3.0.0), rmarkdown, badger
GPArotation, lattice, lavaan, LSAmitR, miceadds, plyr, psych,
sirt, WrightMap
GPArotation, lattice, lavaan, LSAmitR, miceadds, plyr, psych,
sirt, splines, WrightMap
coda, GPArotation, grDevices, lattice, lavaan, MASS,
miceadds, mvtnorm, plyr, psych, sfsmisc, sirt, splines,
WrightMap
coda, GPArotation, grDevices, lattice, lavaan, MASS,
miceadds, mvtnorm, plyr, psych, sfsmisc, splines, WrightMap
oro.nifti, magrittr, knitr, rmarkdown, webshot
rmarkdown, knitr, testthat (>= 3.0.0), TDA, TDAstats
rmarkdown, knitr, testthat (>= 3.0.0), TDA, TDAstats,
reticulate
testthat (>= 2.0.0), knitr, rmarkdown, covr
adabag, cmaes, parallel, powell, ROCR, twiddler,
randomForest, rCMA, rSFA
adabag, cmaes, parallel, e1071, powell, ROCR, randomForest,
rCMA, rSFA, twiddler
cmaes, parallel, e1071, powell, ROCR, randomForest, rCMA,
rSFA
cmaes, parallel, e1071, ROCR, randomForest, rCMA, rSFA
R.rsp, testthat (>= 2.1.0), knitr, rmarkdown
dplyr, gdata, plyr, trtf, tram, rms, coin, ATR, multcomp,
gridExtra, vcd, colorspace, lattice, knitr
knitr, rmarkdown, stringr, RClickhouse, data.tree, BED
magrittr, knitr, lmomco, Lmoments, lmom, microbenchmark
magrittr, knitr, lmomco, Lmoments, lmom, evd
evd, knitr, magrittr, lmom, lmomco, Lmoments, rmarkdown
evd, knitr, magrittr, lmom, Lmoments, rmarkdown
knitr, rmarkdown, testthat, vcr (>= 0.6.0), devtools
knitr, rmarkdown, broom, car, afex, testthat (>= 3.0.0)
knitr, rmarkdown, ggplot2, patchwork, testthat (>= 3.0.0)
zoo, tseries, tfplot, TShistQuote (>= 2010.5-1)
zoo, tseries, tfplot, tframePlus, timeSeries
sp, maps, maptools, doParallel, testthat
tframePlus, TSsql, TSMySQL, TSSQLite, TShistQuote
tframePlus, TSsql, TSMySQL, TSSQLite, TSmisc, zoo
TSPostgreSQL, TSMySQL, TSSQLite, TSodbc, TSgetSymbol(>=
2012.8-1), TShistQuote, TSfame, TSpadi, TSxls, TSzip,
TScompare, zoo, tseries, its
TSPostgreSQL, TSMySQL, TSSQLite, TSodbc, TSgetSymbol,
TShistQuote, TSfame, TSpadi, TSxls, TSzip, TScompare, zoo,
tseries, its
tframe, tframePlus (>= 2012.8-1), tfplot, TSdbi (>=
2013.9-1), TSsql (>= 2013.9-1), TSPostgreSQL, TSMySQL,
TSSQLite, TSodbc, TSgetSymbol (>= 2012.8-1), TShistQuote,
TSfame, TSxls, TSzip, TScompare, zoo, tseries, its, TSjson,
WriteXLS
tframe, tframePlus, tfplot, TSdbi (>= 2015.1-1), TSsql (>=
2015.1-1), TSPostgreSQL (>= 2015.1-1), TSMySQL (>= 2015.4-1),
TSSQLite (>= 2015.1-1), TSodbc (>= 2015.1-1), TSsdmx, TSmisc,
TScompare (>= 2015.1-1), zoo, xts, tseries, its, WriteXLS, DBI
(>= 0.3.1), RPostgreSQL, RSQLite, RMySQL, RODBC, RJSDMX
tframe, tframePlus, tfplot, TSdbi (>= 2015.1-1), TSsql (>=
2015.1-1), TSPostgreSQL (>= 2015.1-1), TSMySQL (>= 2015.4-1),
TSSQLite (>= 2015.1-1), TSodbc (>= 2015.1-1), TSsdmx, TSmisc,
TScompare (>= 2015.1-1), zoo, xts, tseries, WriteXLS, DBI (>=
0.3.1), RPostgreSQL, RSQLite, RMySQL, RODBC, RJSDMX
knitr, rmarkdown, ggplot2, data.table, moments
knitr, rmarkdown, ggplot2, data.table, moments, testthat
zoo, tseries, tis, tfplot, tframePlus, RMySQL, RSQLite
knitr, rmarkdown, devtools, quantmod, DT
devtools, DT, knitr, quantmod, rmarkdown, UKgrid
devtools, DT, knitr, quantmod, rmarkdown
zoo, timeSeries, xts, tis, tframePlus (>= 2011.2-2)
mlbench, ElemStatLearn, rpart, randomForest, snow, multicore
MASS, mlbench, ElemStatLearn, rpart, randomForest, parallel
boot, reshape, reshape2, ggplot2, grid, ggdendro, sets, mgcv
testthat (>= 2.1.0), covr, knitr, rmarkdown
foreach, parallel, doParallel, tcgsaseq, knitr, GEOquery,
rmarkdown
BiocManager, foreach, parallel, doParallel, dearseq, knitr,
GEOquery, rmarkdown
BiocManager, foreach, parallel, doParallel, tcgsaseq, knitr,
GEOquery, rmarkdown
knitr, rmarkdown, testthat, dplyr, xtable
devtools, readr, stringi, testthat (>= 2.0.0), tinytex
devtools, readr, rlang, stringi, testthat (>= 2.0.0), tinytex
MASS, maptools, mapproj, rgl, qcc, sgeostat
tcltk, lattice, tkrplot, MASS, rgl, sgeostat, mapproj
tcltk, tcltk2, lattice, MASS, rgl, sgeostat, mapproj
tkrplot, lattice, MASS, rgl, tcltk, tcltk2, png, ggplot2,
logspline, maptools, R2wd, manipulate
tkrplot, lattice, MASS, rgl, sgeostat, mapproj, tcltk, tcltk2
tkrplot, lattice, MASS, rgl, sgeostat, mapproj, tcltk,
tcltk2, R2wd, EBImage, png
tkrplot, lattice, MASS, rgl, tcltk, tcltk2, R2wd, EBImage,
png, ggplot2, logspline, maptools
abind, glmnet, testthat, knitr, rmarkdown
knitr, readxl, rmarkdown, testthat, vdiffr
colourpicker, knitr, readxl, rmarkdown, shinyjs, testthat,
vdiffr
colourpicker, knitr, readxl, rmarkdown, shinyjs, testthat (>=
3.0), vdiffr,
colourpicker, knitr, readxl, rmarkdown, shinyjs, spelling,
testthat (>= 3.0), vdiffr,
gurobi, Rsymphony, Rglpk, shiny, shinythemes, shinyWidgets,
shinyjs, DT, knitr, rmarkdown, testthat (>= 2.1.0)
gurobi, Rsymphony, Rglpk, shiny, shinythemes, shinyWidgets,
shinyjs, DT, knitr, rmarkdown, kableExtra, testthat (>= 2.1.0)
lpsymphony, Rsymphony, gurobi, Rglpk, shiny, shinythemes,
shinyWidgets, shinyjs, DT, knitr, rmarkdown, kableExtra,
testthat (>= 2.1.0)
Rsymphony, gurobi, lpSolve, Rglpk, shiny, shinythemes,
shinyWidgets, shinyjs, DT, knitr, rmarkdown, kableExtra,
testthat (>= 2.1.0)
lpsymphony, Rsymphony, gurobi, Rglpk, mirt, progress, shiny,
shinythemes, shinyWidgets, shinyjs, DT, knitr, rmarkdown,
kableExtra, testthat (>= 2.1.0), pkgdown
lpsymphony, Rsymphony, gurobi, Rglpk, mirt, progress, shiny,
shinythemes, shinyWidgets, shinyjs, DT, knitr, rmarkdown,
kableExtra, testthat (>= 2.1.0), pkgdown, pkgload
lpsymphony, Rsymphony, gurobi, Rglpk, mirt, mirtCAT,
progress, shiny, shinythemes, shinyWidgets, shinyjs, DT, knitr,
rmarkdown, kableExtra, testthat (>= 2.1.0), pkgdown, pkgload
spatstat, smacpod, colorspace, car, effects, rgdal, spdep,
DMwR, ClustGeo, knitr, rmarkdown, testthat
SnowballC, readxl, jsonlite, parallel, ggrepel, ggpubr,
igraph, ggraph, ape, topicmodels, ca, corrr, data.table, knitr,
rmarkdown
tkrplot, SnowballC, readxl, jsonlite, parallel, ggrepel,
ggpubr, igraph, ggraph, ape, topicmodels, ca, corrr,
data.table, knitr, rmarkdown
knitr, rmarkdown, ape, testthat (>= 3.0.0)
rmarkdown, knitr, roxygen2, cli, crayon, rstudioapi
tidyr, testthat (>= 3.0.0), knitr, rmarkdown, ggplot2
tidyr, testthat (>= 3.0.0), knitr, rmarkdown, ggplot2,
HistDat
testthat (>= 2.1.0), rmarkdown, knitr, knitcitations,
tinytex, devtools, PharmacoGx, xtable
testthat (>= 2.1.0), rmarkdown, knitr, tinytex,
knitcitations, devtools, PharmacoGx, xtable
testthat (>= 2.1.0), haven (>= 2.2.0), knitr, rmarkdown,
huxtable, tidyverse, readr, kableExtra, pharmaRTF
testthat (>= 2.1.0), haven (>= 2.2.0), knitr, rmarkdown,
huxtable, tidyverse, readr, kableExtra, pharmaRTF, withr
lattice, onion, plotrix, rgl, scatterplot3d
testthat, knitr, rmarkdown, covr, ggplot2, rgeos, magrittr
knitr, testthat, purrr, coda, grDevices, lattice
knitr, testthat, purrr, coda, grDevices, lattice, rmarkdown
bookdown, cluster, kdensity, knitr, MASS, Quartet, rmarkdown,
Rcpp, Rdpack, testthat, Ternary (>= 1.1.2), TreeDistData (>
0.1.0), TreeSearch, vdiffr
bookdown, cluster, kdensity, knitr, MASS, Quartet, rmarkdown,
Rcpp, testthat, Ternary (>= 1.1.2), TreeDistData (> 0.1.0),
TreeSearch, vdiffr
bookdown, cluster, kdensity, knitr, MASS, protoclust,
Quartet, readxl, rmarkdown, Rcpp, rgl, testthat, Ternary (>=
1.1.2), TreeDistData (> 0.1.0), TreeSearch, vdiffr, viridisLite
bookdown, cluster, ggplot2, kdensity, knitr, MASS,
protoclust, Quartet, readxl, rmarkdown, Rcpp, rgl, testthat,
Ternary (>= 1.1.2), TreeDistData (> 0.1.0), TreeSearch,
Umatrix, vdiffr (>= 1.0.0)
bookdown, cluster, ggplot2, kdensity, knitr, MASS, parallel,
protoclust, Quartet, readxl, rmarkdown, Rcpp, rgl, testthat (>=
3.0), Ternary (>= 1.1.2), TreeDistData (> 0.1.0), TreeSearch,
Umatrix, vdiffr (>= 1.0.0)
bookdown, cluster, ggplot2, hypervolume, kdensity, knitr,
MASS, parallel, protoclust, Quartet, readxl, rmarkdown, Rcpp,
rgl, spelling, testthat (>= 3.0), Ternary (>= 1.1.2),
TreeDistData (> 0.1.0), TreeSearch, Umatrix, uwot, vdiffr (>=
1.0.0)
bookdown, cluster, ggplot2, hypervolume, kdensity, knitr,
MASS, parallel, protoclust, Quartet, readxl, rmarkdown, Rcpp
(>= 1.0.8), rgl, spelling, testthat (>= 3.0), Ternary (>=
1.1.2), TreeDistData (> 0.1.0), TreeSearch, Umatrix, uwot,
vdiffr (>= 1.0.0),
bookdown, cluster, ggplot2, hypervolume, kdensity, knitr,
MASS, parallel, protoclust, Quartet, readxl, rmarkdown, Rcpp
(>= 1.0.8), rgl, Rogue, spelling, testthat (>= 3.0), Ternary
(>= 1.1.2), TreeDistData (> 0.1.0), TreeSearch, Umatrix, uwot,
vdiffr (>= 1.0.0),
bookdown, cluster, ggplot2, hypervolume, kdensity, knitr,
MASS, parallel, plotly, protoclust, Quartet, readxl, rmarkdown,
Rcpp (>= 1.0.8), rgl, Rogue, spelling, testthat (>= 3.0),
Ternary (>= 1.1.2), TreeDistData (> 0.1.0), TreeSearch,
Umatrix, uwot, vdiffr (>= 1.0.0),
knitr, Rcpp, rmarkdown, shiny, testthat, xlsx
knitr, rmarkdown, Quartet, testthat, vdiffr (>= 1.0.0),
knitr, Quartet, rmarkdown, spelling, testthat, vdiffr (>=
1.0.0),
knitr, phangorn (>= 2.2.1), Quartet, rmarkdown, shinytest,
spelling, testthat, vdiffr (>= 1.0.0),
knitr, Rcpp, Rdpack, rmarkdown, shiny, testthat
knitr, Rcpp, rmarkdown, shiny, testthat, vdiffr
knitr, Rcpp, rmarkdown, shiny, testthat, vdiffr (>= 1.0.0)
knitr, Rcpp, rmarkdown, shiny, testthat (>= 3.0), vdiffr (>=
1.0.0),
spelling, knitr, phangorn (>= 2.2.1), Rcpp, rmarkdown, shiny,
testthat (>= 3.0), vdiffr (>= 1.0.0),
spelling, knitr, phangorn (>= 2.2.1), Rcpp (>= 1.0.8),
rmarkdown, shiny, testthat (>= 3.0), vdiffr (>= 1.0.0),
spelling, knitr, phangorn (>= 2.2.1), Rcpp (>= 1.0.8),
rmarkdown, testthat (>= 3.0), vdiffr (>= 1.0.0),
spelling, knitr, phangorn (>= 2.2.1), purrr, Rcpp (>= 1.0.8),
rlang, rmarkdown, testthat (>= 3.0), vdiffr (>= 1.0.0),
stats, graphics, grDevices, utils, knitr, rmarkdown, plyr
stats, utils, graphics, grDevices, knitr, rmarkdown, plyr
knitr, rmarkdown, mvtnorm, testthat, carData
snowfall, class, tree, e1071, randomForest, igraph
snowfall, desire, igraph, gsl, class, tree, e1071,
randomForest, klaR
snowfall, igraph, gsl, class, tree, e1071, randomForest, klaR
rmarkdown, knitr, leaflet, tidytext, modeltools, LDAvis, tm,
ldatuning, stringi, servr,
rmarkdown, knitr, tidytext, modeltools, servr
MASS, rpart, testthat, DMwR, ggplot2, e1071
MASS, rpart, testthat, DMwR2, ggplot2, e1071
covr (>= 3.2.1), cowplot, DT (>= 0.5), furrr, future,
ggrepel, ggstatsplot, knitr, pacman, plotly, plyr, RColorBrewer
(>= 1.1.2), rmarkdown, scales, survival, survminer, testthat
(>= 2.0.1)
knitr, rmarkdown, prettydoc, testthat, covr
DT, knitr, rmarkdown, prettydoc, shiny, shinydashboard,
testthat (>= 2.1.0), covr
knitr, rmarkdown, prettydoc, testthat (>= 2.1.0), covr
covr, DT, knitr, prettydoc, rmarkdown, shiny, shinydashboard,
testthat (>= 2.1.0)
devtools, knitr, rmarkdown, remotes, TSstudio, testthat
USA.state.boundaries.data, install.load, drat, graphics,
rgdal, raster, ggspatial, ggplot2, knitr, rmarkdown, gotop
USAboundariesData (>= 0.2.0), knitr, testthat (>= 0.9.1)
sf (>= 0.5.1), testthat (>= 0.9.1), USAboundariesData (>=
0.3.0), covr
sf (>= 0.5.1), testthat (>= 0.9.1), USAboundariesData (>=
0.3.1), covr, knitr, rmarkdown, dplyr, leaflet
sf (>= 1.0.0), testthat (>= 0.9.1), USAboundariesData (>=
0.4.0), covr, knitr, rmarkdown, dplyr, leaflet
knitr, lubridate, rmarkdown, devtools, plotly, remotes,
tidyr, testthat, usethis
MASS, car (>= 2.1-2), knitr, pander, rmarkdown
carData, knitr, pander, rmarkdown, rticles, R.rsp
zoo, coin, ggplot2, vcd, lubridate, aplpack
rmarkdown, knitr, testthat (>= 3.0.0), xml2, R.rsp
Seurat (>= 4.0.0), SeuratObject (>= 4.0.0), sctransform (>=
0.3.2)
adehabitatHS, kulife, MASS, car, ade4, IDPmisc
adehabitatHS, kulife, MASS, car, ade4, IDPmisc, REdaS, ca,
ltm, psych, usdm
dplyr, testthat (>= 2.1.0), knitr, rmarkdown
dplyr, testthat (>= 2.1.0), knitr, rmarkdown, reactable
dplyr, tinytest, knitr, rmarkdown, reactable, covr, withr
OpenImageR, R.matlab, glue, testthat (>= 3.0.0), rmarkdown,
knitr
OpenImageR, R.matlab, testthat (>= 3.0.0), rmarkdown, knitr
dplyr, DT, htmlwidgets, rtweet (>= 0.6.8), shinydashboard,
shinyjs, visNetwork
knitr, rmarkdown, ggplot2, lwgeom, tidyr
knitr, rmarkdown, dplyr, htmltools, scales, plyr
knitr, rmarkdown, testthat (>= 3.0.0), qpdf, formatR,
spelling, tinytex
testthat (>= 2.1.0), covr, knitr, rmarkdown, leaflet
CDVine, TSP, shiny, testthat, numDeriv, kdecopula (>= 0.8.0),
network
TSP, shiny, testthat, numDeriv, kdecopula (>= 0.8.0), network
knitr, devtools, roxygen2, testthat, rmarkdown
zoo, FNN, readr, knitr, cowplot, bookdown, rmarkdown, SPEI,
NPRED, fracdiff, synthesis, kableExtra, fitdistrplus, testthat
zoo, FNN, readr, knitr, cowplot, gridGraphics, bookdown,
rmarkdown, SPEI, NPRED, synthesis, kableExtra, fitdistrplus,
testthat
zoo, FNN, readr, knitr, cowplot, gridGraphics, bookdown,
rmarkdown, SPEI, NPRED, synthesis, kableExtra, fitdistrplus,
devtools, testthat
GO.db, org.Hs.eg.db, org.Mm.eg.db, AnnotationDbi, infotheo,
entropy, minet
GO.db, org.Hs.eg.db, org.Mm.eg.db, AnnotationDbi, infotheo,
entropy, minet, survival
org.Hs.eg.db, org.Mm.eg.db, infotheo, entropy, minet
knitr, beanplot, car, colorspace, mediation
knitr, beanplot, car, colorspace, ez, MBESS
knitr, car, ggplot2, colorspace, mediation, GGally
knitr, car, ggplot2, colorspace, mediation, GGally, codetools
doParallel, EGRET, grDevices, magrittr, plotly, knitr,
rmarkdown
knitr, testthat, devtools, reshape2, plyr, graphics
knitr, testthat, cdata (>= 0.6.0), RSQLite, plotly
knitr, testthat, cdata (>= 0.7.0), plotly
knitr, rmarkdown, plotly, hexbin, tinytest
BayesSingleSub, boot, devtools, knitr, scales, testthat
knitr, rmarkdown, ggplot2, ggvoronoi, sampling,
BalancedSampling, sp, sf, stats
knitr, rmarkdown, ggplot2, sampling, BalancedSampling, stats
testthat, knitr, rmarkdown, EdSurvey (>= 2.6.1)
testthat, knitr, rmarkdown, withr, EdSurvey (>= 2.6.1)
testthat, knitr, rmarkdown, withr, tidyr, EdSurvey (>= 2.6.1)
twang (>= 1.5), CBPS (>= 0.18), ebal (>= 0.1-6), ATE (>=
0.2.0), optweight (>= 0.2.0), SuperLearner, class, gam, mlogit
(>= 0.3-0), MNP (>= 3.1-0), survey, jtools, boot, wCorr, gbm
(>= 2.1.3), knitr, rmarkdown
SparseM, xtable, Matrix, MASS, e1071, knitr
ROCR, pROC, microbenchmark, glmnet, ElemStatLearn, testthat,
ggplot2
ROCR, pROC, PRROC, microbenchmark, glmnet, ElemStatLearn,
testthat, ggplot2, GsymPoint, geometry
ROCR, pROC, PRROC, microbenchmark, glmnet, testthat, ggplot2,
GsymPoint, geometry
markdown, testthat, tidyverse, knitr, pageviews
knitr, microbenchmark, rmarkdown, testthat, covr, DiagrammeR
knitr, microbenchmark, rmarkdown, testthat, covr, DiagrammeR
(>= 0.9.0)
knitr, microbenchmark, rmarkdown, testthat, covr, DiagrammeR
(>= 0.9.2)
ggplot2, knitr, magrittr, pander, rmarkdown, testthat,
tidyselect, utf8
ggplot2, knitr, magrittr, pander, rmarkdown, scales,
testthat, utf8
knitr, rmarkdown, ggplot2, ReporteRs, testthat
foreach, doParallel, akima, corrplot, gridExtra, grid
foreach, doParallel, akima, corrplot, gridExtra, grid,
treemapify, GenomeInfoDb, GenomicScores
foreach, doParallel, akima, corrplot, gridExtra, grid,
treemapify, GenomeInfoDb, GenomicScores, ggraph, ggbio
foreach, doParallel, akima, corrplot, gridExtra, grid,
treemapify, GenomeInfoDb, GenomicScores, ggraph, ggbio, scales
foreach, doParallel, corrplot, gridExtra, grid, treemapify,
GenomeInfoDb, ggraph, sna, circlize, data.tree, jsonlite,
networkD3, ggforce, base64enc, rmarkdown, DT, RColorBrewer,
ggpubr, rtracklayer
RUnit, lattice, tikzDevice, ggplot2, fImport, forecast, zoo
RUnit, lattice, tikzDevice, ggplot2 (>= 0.9.0), scales,
fImport, forecast, zoo
RUnit, lattice, ggplot2 (>= 0.9.0), scales, fImport,
forecast, zoo
RUnit, lattice, ggplot2 (>= 0.9.3), fImport, forecast, zoo,
scales
covr, knitr, mapproj, maps, methods, rgdal, rmarkdown,
testthat (>= 3.0.0)
covr, knitr, mapproj, maps, methods, rgdal, rlang, rmarkdown,
testthat (>= 3.0.0)
markdown, knitr, ggplot2, ggrepel, ggthemes, kableExtra,
stringr
VGAM, survival, sandwich, zoo, MCMCpack, coda
VGAM, mvtnorm, survival, sandwich (>= 1.1-0), zoo (>= 1.0-4), MCMCpack, coda
VGAM (>= 0.6-7), mvtnorm, survival, sandwich (>= 1.1-0), zoo (>= 1.0-4), MCMCpack, coda
VGAM (>= 0.6-7), mvtnorm, survival, sandwich (>= 1.1-0),
zoo (>= 1.0-4), MCMCpack, coda
VGAM (>= 0.6-7), MCMCpack (>= 0.7-1), mvtnorm, survival,
sandwich (>= 1.1-0), zoo (>= 1.0-4), coda
VGAM (>= 0.6-7), MCMCpack (>= 0.7-1), mvtnorm, survival,
sandwich (>= 1.1-0), zoo (>= 1.0-4), coda, nnet
VGAM (>= 0.6-9), MCMCpack (>= 0.7-1), mvtnorm, survival,
sandwich (>= 1.1-1), zoo (>= 1.0-4), coda, nnet
VGAM (>= 0.7-1), MCMCpack (>= 0.7-4), mvtnorm, survival,
sandwich (>= 2.0-0), zoo (>= 1.2-1), coda, nnet
VGAM (>= 0.7-1), MCMCpack (>= 0.7-4), mvtnorm, survival,
sandwich (>= 2.0-0), zoo (>= 1.2-1), coda, nnet, sna
VGAM (>= 0.7-1), MCMCpack (>= 0.7-4), mvtnorm, survival,
sandwich (>= 2.0-0), zoo (>= 1.2-1), coda, nnet, sna, gee,
systemfit, mgcv
VGAM (>= 0.7-1), MCMCpack (>= 0.7-4), mvtnorm, survival,
sandwich (>= 2.0-0), zoo (>= 1.2-1), coda, nnet, sna, gee,
systemfit, mgcv, lme4, anchors (>= 2.0)
VGAM (>= 0.7-5), MCMCpack (>= 0.8-2), mvtnorm, survival,
sandwich (>= 2.1-0), zoo (>= 1.5-0), coda, nnet, sna, gee,
systemfit, mgcv, lme4, anchors (>= 2.0), survey
VGAM (>= 0.7-5), MCMCpack (>= 0.8-2), mvtnorm, survival,
sandwich (>= 2.1-0), zoo (>= 1.5-0), coda, nnet, sna, gee,
systemfit, mgcv, lme4, anchors (>= 2.0), survey, quantreg
VGAM (>= 0.8-4), MCMCpack (>= 0.8-2), mvtnorm, survival,
sandwich (>= 2.1-0), zoo (>= 1.5-0), coda, nnet, sna, gee,
systemfit, mgcv, lme4, anchors (>= 2.0), survey, quantreg
mvtnorm, Formula, gee, survey, survival, systemfit, MCMCpack,
coda
Amelia, mvtnorm, Formula, gee, survey, survival, systemfit,
MCMCpack, coda
Amelia, mvtnorm, Formula, gee, survey, survival, systemfit,
MatchIt, MCMCpack, coda
ei, eiPack, knitr, networkD3, optmatch, rmarkdown, testthat,
tidyverse, ZeligChoice, ZeligEI, zeligverse
ei, eiPack, knitr, networkD3, optmatch, rmarkdown, testthat
covr, DT, knitr, mockery, rmarkdown, spelling, testthat,
withr
lattice, randomForest, ROCR, reshape2, testthat
lattice, randomForest, ROCR, reshape2, testthat, protiq
devtools, knitr, rmarkdown, roxygen2, testthat
caret, knitr, rpart.plot, rmarkdown, e1071
covr, knitr, plotly, rmarkdown, testthat (>= 3.0.0), methods,
tidyselect, nlme, yardstick, pins, Matrix, MuMIn, broom.mixed,
emmeans, ggpubr, pROC, progress, OptimalCutpoints, tableone,
longpower, withr, reactable, psychometric, readr, writexl
testthat, rmarkdown, knitr (>= 1.11), lintr
boot, car, ggplot2, HH, plyr, vcd, Hmisc
boot, car, ggplot2, plyr, HH, vcd, Hmisc
boot, car, ggplot2, plyr, HH, ICC, vcd, Hmisc, manipulate
boot, car, ggplot2, plyr, HH, ICC, vcd, Hmisc
INLA, Rgraphviz, knitr, R.rsp, testthat, entropy, moments,
boot, brglm
INLA, knitr, R.rsp, testthat, entropy, moments, boot, brglm
knitr, dplyr (>= 1.0.0), rmarkdown, pct, tmap, foreign
knitr, dplyr (>= 1.0.0), rmarkdown, tmap, pct, foreign
knitr, rmarkdown, devtools, testthat (>= 3.0.0), httptest,
lifecycle, covr
covr, ggplot2, knitr, r5r, rmarkdown, sf, stats, testthat
covr, ggplot2, knitr, rmarkdown, sf, stats, testthat
knitr, markdown, patchwork, rmarkdown, testthat, vdiffr
raster, gdistance, sp, tools, rgdal, testthat, RGtk2,
gWidgets2RGtk2, gWidgets2
shinytest, covr, knitr, spelling, testthat (>= 3.0.0),
processx, globals, config, tidyselect, DBI, assertthat,
htmltools, officer, pkgload, scales, tibble, rlang, tinytex
rmarkdown, knitr, testthat (>= 3.0.0), VGAM, covr
glmnet, HDtweedie, mgcv, splines, testthat, knitr, rmarkdown,
dplyr
covr, ggplot2, rmarkdown, knitr, testthat, vdiffr
covr, devtools, knitr, recipes, rmarkdown, roxygen2,
spelling, testthat, workflows
waveslim, splancs, MASS, maptools, spdep, pixmap, ape, tripack
waveslim, splancs, MASS, maptools, spdep, pixmap, ape, tripack, ade4TkGUI
waveslim, splancs, MASS, maptools, spdep, pixmap, ape,
tripack, ade4TkGUI
waveslim, splancs, MASS, maptools, spdep, pixmap, ape,
deldir, ade4TkGUI
ade4TkGUI, adegraphics, adephylo, ape, CircStats, deldir,
lattice, pixmap, sp, spdep, splancs, waveslim
ade4TkGUI, adegraphics, adephylo, ape, CircStats, deldir,
lattice, spdep, splancs, waveslim
ade4TkGUI, adegraphics, adephylo, ape, CircStats, deldir,
lattice, spdep, splancs, waveslim, progress, foreach, parallel,
doParallel, iterators
waveslim, splancs, MASS, maptools, spdep, pixmap, ape,
deldir, ade4TkGUI, adegraphics, sp, lattice
ade4TkGUI, adegraphics, ape, CircStats, deldir, lattice,
maptools, MASS, pixmap, sp, spdep, splancs, waveslim
ade4TkGUI, adegraphics, adephylo, ape, CircStats, deldir,
lattice, maptools, MASS, pixmap, sp, spdep, splancs, waveslim
ade4, genetics, hierfstat, spdep, tripack
ade4, genetics, hierfstat, spdep, tripack, ape
ade4, genetics, hierfstat, spdep, tripack, ape, pegas, graph,
RBGL
ade4, genetics, hierfstat, spdep, tripack, ape, pegas, graph,
RBGL, seqinr
genetics, spdep, tripack, ape, pegas, seqinr, multicore,
adehabitat
genetics, spdep, tripack, ape, pegas, seqinr, adehabitat,
multicore, akima, maps
genetics, spdep, tripack, ape, pegas, seqinr, adehabitat,
multicore, akima, maps, splancs
genetics, spdep, tripack, ape, pegas, seqinr, adehabitat,
multicore, akima, maps, splancs, hierfstat
genetics, spdep, tripack, pegas, seqinr, adehabitat,
multicore, akima, maps, splancs, hierfstat
genetics, spdep, tripack, pegas, seqinr, adehabitat,
parallel, akima, maps, splancs, hierfstat
pegas, hierfstat, akima, maps, splancs, adehabitat, tripack,
testthat
pegas, hierfstat, akima, maps, splancs, tripack, testthat,
poppr
adespatial, pegas, hierfstat, akima, maps, spdep, splancs,
tripack, testthat, poppr
adespatial, pegas, hierfstat, maps, spdep, interp, splancs,
poppr, testthat
Guerry, maptools, pixmap, spdep, splancs
Guerry, knitr, maptools, pixmap, rmarkdown, spdep, splancs
Guerry, knitr, maptools, pixmap, rmarkdown, markdown, spdep,
splancs
Guerry, knitr, maptools, pixmap, rgdal, rmarkdown, spData (>=
0.2.6.2), spdep, splancs
gpclib, sp, spatstat, MASS, tkrplot, shapefiles
gpclib, sp, spatstat, MASS, tkrplot, shapefiles, CircStats
knitr, rmarkdown, testthat, ggplot2, lubridate, reshape2,
gridExtra, spelling, cluster, adeptdata
knitr, rmarkdown, testthat, ggplot2, lubridate, reshape2,
gridExtra, spelling, cluster, adeptdata, covr
vegan, knitr, RANN, rgeos, maptools, ape, rmarkdown
knitr, RANN, rgeos, maptools, ape, rmarkdown
knitr, rmarkdown, dplyr, ggplot2, tidyr, curl
BiocStyle, knitr, testthat, rmarkdown, rioja
knitr, testthat, rmarkdown, rioja, HiTC, snpStats
knitr, testthat, rmarkdown, rioja, HiTC, snpStats,
BiocGenerics
devtools, diffdf, lifecycle, lintr, pkgdown, testthat, knitr,
methods, miniUI, rmarkdown, roxygen2, spelling, styler, tibble,
usethis, covr, DT
admiral.test, devtools, diffdf, knitr, lintr, pkgdown,
testthat, methods, miniUI, rmarkdown, roxygen2, spelling,
styler, tibble, usethis, covr, DT
admiral.test, covr, devtools, DT, diffdf, knitr, lintr,
methods, pkgdown, readxl, rmarkdown, roxygen2, spelling,
styler, testthat, tibble, usethis
devtools, lintr, pkgdown, testthat, knitr, rmarkdown,
roxygen2, spelling, styler, usethis, covr
admiral.test, devtools, diffdf, lintr, pkgdown, testthat,
knitr, methods, miniUI, rmarkdown, roxygen2, rstudioapi,
spelling, styler, tibble, usethis, covr, DT
admiral.test, devtools, diffdf, lifecycle, lintr, pkgdown,
testthat (>= 3.0.0), knitr, methods, miniUI, rmarkdown,
roxygen2, spelling, stringr, styler, tibble, usethis, covr, DT
rmutil, doParallel, foreach, evd, logitnorm, flexsurv, plyr,
reshape2, gridExtra, lattice, testthat (>= 3.0.0), knitr,
rmarkdown, markdown
covr, glue, testthat, tidyr, knitr, rmarkdown, tidyverse
snowfall (>= 1.84.6.1), shinystan (>= 2.5.0), matrixcalc (>=
1.0.3), TMB (>= 1.7.15), stats, knitr, rmarkdown
shinystan (>= 2.5.0), matrixcalc (>= 1.0.3), stats, knitr,
TMB, rmarkdown, withr, testthat (>= 2.1.0)
knitr, rmarkdown, testthat, covr, rpact, vdiffr
knitr, rmarkdown, testthat, covr, rpact, vdiffr, pwr, dplyr,
ggplot2, tidyr, gridExtra, bookdown
knitr, rmarkdown, ggplot2, DescTools, kableExtra, coda,
rjags, ggmcmc, spelling, testthat (>= 3.0.0)
ascii, xtable, parallel, plyr, optimx, nloptr
ascii, xtable, parallel, plyr, optimx, nloptr, knitr,
lattice, multcomp, testthat, mlmRev
ascii, xtable, parallel, plyr, optimx, nloptr, knitr,
lattice, multcomp, testthat, mlmRev, dplyr
xtable, parallel, plyr, optimx, nloptr, knitr, rmarkdown,
lattice, latticeExtra, multcomp, testthat, mlmRev, dplyr,
tidyr, dfoptim, Matrix
xtable, parallel, plyr, optimx, nloptr, knitr, rmarkdown,
lattice, latticeExtra, multcomp, testthat, mlmRev, dplyr,
tidyr, dfoptim, Matrix, psych
xtable, parallel, plyr, optimx, nloptr, knitr, rmarkdown,
lattice, latticeExtra, multcomp, testthat, mlmRev, dplyr,
tidyr, dfoptim, Matrix, psych, ggplot2
xtable, parallel, plyr, optimx, nloptr, knitr, rmarkdown,
R.rsp, lattice, latticeExtra, multcomp, testthat, mlmRev,
dplyr, tidyr, dfoptim, Matrix, psych, ggplot2, MEMSS, effects,
carData
coin, xtable, parallel, plyr, optimx, nloptr, knitr,
rmarkdown, R.rsp, lattice, latticeExtra, multcomp, testthat,
mlmRev, dplyr, tidyr, dfoptim, Matrix, psych, ggplot2, MEMSS,
effects, carData
emmeans (>= 1.1.2), coin, xtable, parallel, plyr, optimx,
nloptr, knitr, rmarkdown, R.rsp, lattice, latticeExtra,
multcomp, testthat, mlmRev, dplyr, tidyr, dfoptim, Matrix,
psych, ggplot2, MEMSS, effects, carData, ggbeeswarm, nlme,
cowplot, jtools, ggpubr, ggpol
emmeans (>= 1.1.2), coin, xtable, parallel, plyr, optimx,
nloptr, knitr, rmarkdown, R.rsp, lattice, latticeExtra,
multcomp, testthat, mlmRev, dplyr, tidyr, dfoptim, Matrix,
psych, ggplot2, MEMSS, effects, carData, ggbeeswarm, nlme,
cowplot, jtools, ggpubr, ggpol, MASS, glmmTMB, brms, rstanarm
emmeans (>= 1.4), coin, xtable, parallel, plyr, optimx,
nloptr, knitr, rmarkdown, R.rsp, lattice, latticeExtra,
multcomp, testthat, mlmRev, dplyr, tidyr, dfoptim, Matrix,
psych, ggplot2, MEMSS, effects, carData, ggbeeswarm, nlme,
cowplot, jtools, ggpubr, ggpol, MASS, glmmTMB, brms, rstanarm
emmeans (>= 1.4), coin, xtable, parallel, plyr, optimx,
nloptr, knitr, rmarkdown, R.rsp, lattice, latticeExtra,
multcomp, testthat, mlmRev, dplyr, tidyr, dfoptim, Matrix,
psychTools, ggplot2, MEMSS, effects, carData, ggbeeswarm, nlme,
cowplot, jtools, ggpubr, ggpol, MASS, glmmTMB, brms, rstanarm
emmeans (>= 1.4), coin, xtable, parallel, plyr, optimx,
nloptr, knitr, rmarkdown, R.rsp, lattice, latticeExtra,
multcomp, testthat, mlmRev, dplyr, tidyr, dfoptim, Matrix,
psychTools, ggplot2, MEMSS, effects, carData, ggbeeswarm, nlme,
cowplot, jtools, ggpubr, ggpol, MASS, glmmTMB, brms, rstanarm,
statmod
emmeans (>= 1.4), coin, xtable, parallel, plyr, optimx,
nloptr, knitr, rmarkdown, R.rsp, lattice, latticeExtra,
multcomp, testthat, mlmRev, dplyr, tidyr, dfoptim, Matrix,
psychTools, ggplot2, MEMSS, effects, carData, ggbeeswarm, nlme,
cowplot, jtools, ggpubr, ggpol, MASS, glmmTMB, brms, rstanarm,
statmod, ggResidpanel
emmeans (>= 1.4), coin, xtable, parallel, plyr, optimx,
nloptr, knitr, rmarkdown, R.rsp, lattice, latticeExtra,
multcomp, testthat, mlmRev, dplyr, tidyr, dfoptim, Matrix,
psychTools, ggplot2, MEMSS, effects, carData, ggbeeswarm, nlme,
cowplot, jtools, ggpubr, ggpol, MASS, glmmTMB, brms, rstanarm,
statmod, performance (>= 0.7.2), see (>= 0.6.4), ez,
ggResidpanel
trustOptim, trust, numDeriv, testthat (>= 2.1.0), knitr,
rmarkdown, ggplot2
trustOptim, trust, numDeriv, testthat (>= 2.1.0), knitr,
rmarkdown
trustOptim, trust, testthat (>= 2.1.0), parallel
testthat, knitr, rmarkdown, MASS, faraway
agricolae, aod, FrF2, gam, gstat, hglm, HH, lme4, MASS,
MCMCglmm, nlme, pcaMethods, pls, rgl, rjags, survival, Zelig
agricolae (>= 1.2), car, coin, corrgram, equivalence, FrF2,
gam, gstat, HH, knitr, latticeExtra, lme4 (>= 1.1-5), lucid,
mapproj, maps, MASS, MCMCglmm, mgcv, nlme, pls, pscl, sp,
survival, vcd
AER, agricolae (>= 1.2), betareg, car, coin, corrgram,
effects, equivalence, FrF2, gam, gstat, HH, knitr,
latticeExtra, lme4 (>= 1.1-5), lucid, mapproj, maps, MASS,
MCMCglmm, mgcv, nlme, ordinal, pls, pscl, qtl, sp, survival,
vcd
AER, agricolae, betareg, broom, car, coin, corrgram, desplot,
dplyr, effects, equivalence, FrF2, gam, gge, ggplot2, gnm,
gstat, HH, knitr, lattice, latticeExtra, lme4, lsmeans, lucid,
mapproj, maps, MASS, MCMCglmm, metafor, mgcv, NADA, nlme,
nullabor, ordinal, pbkrtest, pls, pscl, reshape2, rgdal,
qicharts, qtl, sp, SpATS, survival, vcd, testthat
AER, agricolae, betareg, broom, car, coin, corrgram, desplot,
dplyr, effects, equivalence, emmeans, FrF2, gam, gge, ggplot2,
gnm, gstat, HH, knitr, lattice, latticeExtra, lme4, lucid,
mapproj, maps, MASS, MCMCglmm, metafor, mgcv, NADA, nlme,
nullabor, ordinal, pbkrtest, pls, pscl, reshape2, rgdal,
qicharts, qtl, sp, SpATS, survival, vcd, testthat
AER, agricolae, betareg, broom, car, coin, corrgram, desplot,
dplyr, effects, equivalence, emmeans, FrF2, gam, gge, ggplot2,
gnm, gstat, HH, knitr, lattice, latticeExtra, lme4, lucid,
mapproj, maps, MASS, MCMCglmm, metafor, mgcv, NADA, nlme,
nullabor, ordinal, pbkrtest, pls, pscl, reshape2, rgdal,
rmarkdown, qicharts, qtl, sp, SpATS, survival, vcd, testthat
agricolae, aod, equivalence, exactRankTests, FrF2, gam,
gstat, HH, latticeExtra, lme4, MASS, MCMCglmm, nlme,
pcaMethods, pls, rgl, rjags, survival, Zelig
agricolae, aod, equivalence, exactRankTests, FrF2, gam,
gstat, hglm, HH, latticeExtra, lme4, MASS, MCMCglmm, nlme,
pcaMethods, pls, rgl, rjags, survival, Zelig
agricolae, aod, car, equivalence, exactRankTests, FrF2, gam,
gstat, hglm, HH, latticeExtra, lme4, MASS, MCMCglmm, nlme, pls,
rgl, rjags, survival,
agricolae, aod, car, equivalence, exactRankTests, FrF2, gam,
gstat, hglm, HH, latticeExtra, lme4, mapproj, maps, MASS,
MCMCglmm, mgcv, nlme, pls, survival,
agricolae, aod, car, corrgram, equivalence, exactRankTests,
FrF2, gam, gstat, hglm, HH, latticeExtra, lme4, mapproj, maps,
MASS, MCMCglmm, mgcv, nlme, pls, survival,
agricolae, car, corrgram, equivalence, exactRankTests, FrF2,
gam, gstat, HH, latticeExtra, lme4, mapproj, maps, MASS,
MCMCglmm, mgcv, nlme, pls, sp, survival, vcd
agricolae, car, coin, corrgram, equivalence, FrF2, gam,
gstat, HH, latticeExtra, lme4 (>= 1.0), mapproj, maps, MASS,
MCMCglmm, mgcv, nlme, pls, sp, survival, vcd
agricolae (>= 1.2), car, coin, corrgram, equivalence, FrF2,
gam, gstat, HH, knitr, latticeExtra, lme4 (>= 1.1-5), mapproj,
maps, MASS, MCMCglmm, mgcv, nlme, pcaMethods, pls, sp,
survival, vcd
covr, knitr, modeldata, recipes, rmarkdown, testthat (>=
3.0.0)
shiny, shinyAce, shinythemes, shinyjs, testthat, knitr,
rmarkdown
knitr, rmarkdown, coda, DEoptim, dplyr, FME, ggmcmc,
hydroPSO, Rmalschains
knitr, coda, DEoptim, dplyr, FME, ggmcmc, hydroPSO,
Rmalschains
knitr, rmarkdown, coda, DEoptim, dplyr, FME, ggmcmc,
Rmalschains
knitr, rmarkdown, caRamel, coda, DEoptim, dplyr, FME, ggmcmc,
hydroPSO, imputeTS, Rmalschains, GGally, ggplot2, testthat
knitr, markdown, rmarkdown, caRamel, coda, DEoptim, dplyr,
FME, ggmcmc, hydroPSO, imputeTS, Rmalschains, GGally, ggplot2,
testthat
knitr, rmarkdown, coda, DEoptim, dplyr, FME, ggmcmc,
hydroPSO, imputeTS, Rmalschains, testthat
knitr, markdown, rmarkdown, caRamel, coda, DEoptim, FME,
ggmcmc, hydroPSO, Rmalschains, GGally, ggplot2, testthat
spelling, htmltools, knitr, rmarkdown, testthat
knitr, rmarkdown, htmlwidgets (>= 1.5.3)
knitr, rmarkdown, testthat, htmlwidgets (>= 1.5.3)
knitr, rmarkdown, testthat, tibble, htmlwidgets (>= 1.5.3)
knitr, rmarkdown, testthat, ggplot2, ggseas, mapproj, selectr
knitr, rmarkdown, testthat, ggplot2, ggseas, mapproj,
selectr, covr
knitr, rmarkdown, testthat, ggplot2, ggseas, mapproj,
selectr, covr, ggmap
knitr, rmarkdown, ggplot2, gridExtra, scales
knitr, rmarkdown, flextable, kableExtra, clusterCrit
knitr, rmarkdown, digest, gdtools, kableExtra
knitr, markdown, tinytex, testthat (>= 3.0.0), covr,
rmarkdown, bookdown, xtable, ggplot2, scales, reshape2
devtools, httptest, roxygen2, testthat, knitr, rmarkdown,
covr, remotes
devtools, httptest, roxygen2, testthat, knitr, rmarkdown,
covr, remotes, spelling, fs
testthat, knitr, rmarkdown, ggplot2, covr
knitr, Matrix, rmarkdown, testthat (>= 3.0.0)
knitr, rmarkdown, testthat, vcr (>= 0.6.0)
devtools, testthat, reshape2, knitr, rmarkdown, dplyr
testthat, roxygen2, rplos, knitr, jsonlite
covr, knitr, rmarkdown, testthat (>= 2.1.0)
knitr, ISLR, mice, mlbench, rmarkdown, stringi
covr, extraDistr, knitr, lavaan, psychTools, rmarkdown,
testthat (>= 3.0.0)
Matrix, fBasics, FMStable, RUnit, Rmpfr, sfsmisc
tidyquant, tidyverse, timetk, testthat, knitr
httr, rprojroot, purrr, readr, knitr, rmarkdown, tibble,
listviewer (>= 2.0.0), testthat, pryr, stringr, tidyr, dplyr,
pkgdown, processx, rsvg, png, fs
httr, rprojroot, purrr, readr, knitr, rmarkdown, tibble,
listviewer (>= 2.0.0), testthat, pryr, stringr, tidyr, dplyr,
pkgdown, V8, rsvg, png, fs
covr, spelling, testthat (>= 3.0.0), withr
stringr, knitr, rmarkdown, testthat, spelling, covr
mime, readr, htmltools, commonmark, htmlwidgets
mime, readr, ggplot2, htmltools, commonmark, htmlwidgets,
testthat (>= 3.0.0)
ggplot2, knitr, latex2exp, rmarkdown, testthat (>= 3.0.0)
knitr, rmarkdown, dplyr, ggplot2, testthat, xml2
covr, data.table, knitr, pander, qpdf, remotes, rmarkdown,
testthat, mockr
knitr, rmarkdown, pander, XML, httr, RCurl
testthat (>= 3.0.0), knitr, rmarkdown, e1071
adehabitatLT, bcpa, ctmm, devtools, move, moveHMM, spacetime,
testthat, trajectories, knitr, rmarkdown
adehabitatLT, bcpa, ctmm, devtools, move, moveHMM, spacetime,
testthat, trajectories, knitr, Rdpack, rmarkdown
adehabitatLT, ggplot2, bcpa, devtools, moveHMM, move,
spacetime, testthat, trajectories, knitr, Rdpack, rmarkdown
adehabitatLT, ggplot2, bcpa, devtools, moveHMM, move,
sessioninfo, spacetime, testthat, trajectories, knitr, Rdpack,
rmarkdown
adehabitatLT, ggplot2, bcpa, devtools, moveHMM, move,
sessioninfo, spacetime, trajectories, knitr, Rdpack, rmarkdown,
tinytest
adehabitatLT, ggplot2, bcpa, devtools, moveHMM, move,
sessioninfo, spacetime, trajectories, knitr, rmarkdown,
tinytest
adehabitatLT, adehabitatMA, broom, ggplot2, ggraph,
geosphere, KernSmooth, FNN, bcpa, leaflet, moveHMM, move,
sessioninfo, spacetime, trajectories, knitr, rmarkdown,
tinytest, tidygraph, maptools
adehabitatLT, adehabitatMA, broom, ggplot2, ggraph,
geosphere, KernSmooth, FNN, leaflet, moveHMM, move,
sessioninfo, spacetime, trajectories, knitr, rmarkdown,
tinytest, tidygraph, maptools
roxygen2 (>= 5.0.1), testthat, knitr, covr
roxygen2 (>= 6.1.1), testthat, knitr, ssh (>= 0.6)
testthat, knitr, ssh (>= 0.6), aws.s3, arrow
plotly, knitr, rmarkdown, parallel, visNetwork, rjson, DT,
shiny, R.devices, corrplot, car, foreign
data.table, testthat, tidyr, reshape2, rmarkdown, MASS,
shiny, nnet, knitr
covr, knitr, mockery, stringi, testthat (>= 3.0.0), withr
extrafont, dplyr, knitr, rmarkdown, testthat, MASS
covr, ggplot2, ggpolypath, graticule, knitr, purrr,
rmarkdown, sfheaders, testthat (>= 2.1.0), trip
covr, ggplot2, graticule, knitr, purrr, rmarkdown, sfheaders,
testthat (>= 2.1.0), trip, gibble
maps, knitr, mapdata, testthat, rmarkdown
knitr (>= 1.5.33), servr, gistr (>= 0.2), shiny, htmltools,
rmarkdown, testthat, devtools, httr, maps, ggplot2movies,
hexbin, Hmisc, lattice, mapproj, maptools, mgcv, nlme,
quantreg, rpart, svglite
servr, gistr (>= 0.2), shiny, htmltools, rmarkdown, testthat,
devtools, httr, maps, ggplot2movies, hexbin, Hmisc, lattice,
mapproj, maptools, mgcv, nlme, quantreg, rpart, svglite
servr, gistr (>= 0.2), shiny, htmltools, rmarkdown, testthat,
devtools, httr, maps, ggplot2movies, hexbin, Hmisc, lattice,
mapproj, maptools, mgcv, nlme, rpart, svglite
servr, gistr (>= 0.2), shiny, RColorBrewer, htmltools,
rmarkdown, testthat, devtools, httr, maps, ggplot2movies,
hexbin, Hmisc, lattice, mapproj, maptools, mgcv, nlme, rpart,
svglite, ggplot2
Matrix, stats, testthat, knitr, rmarkdown
testthat (>= 3.0.0), sf, terra, spelling
tidyverse, tidyquant, testthat, covr, knitr, rmarkdown,
devtools, roxygen2
tidyverse, tidyquant, stringr, testthat (>= 2.1.0), covr,
knitr, rmarkdown, devtools, roxygen2
gplots, knitr, RColorBrewer, rmarkdown, testthat,
datasauRus, maps, testthat, knitr, rmarkdown
datasauRus, datasets, gganimate, ggplot2, maps, testthat,
knitr, rmarkdown
rhdf5 (>= 2.20.0), parallel, testthat, knitr, rmarkdown, covr
rhdf5 (>= 2.24.0), parallel, testthat, knitr, rmarkdown, covr
rhdf5 (>= 2.20.0), testthat, knitr, rmarkdown, foreach,
parallel
rhdf5 (>= 2.20.0), testthat, knitr, rmarkdown, foreach,
parallel, DT, htmltools
rhdf5 (>= 2.24.0), testthat, knitr, rmarkdown, foreach,
parallel, DT, htmltools
rhdf5 (>= 2.24.0), testthat, covr, knitr, rmarkdown, foreach,
parallel, DT, htmltools, antaresEditObject
rhdf5 (>= 2.24.0), testthat, covr, knitr, rmarkdown, foreach,
parallel, DT, htmltools
rhdf5 (>= 2.24.0), testthat, covr, knitr, rmarkdown, foreach,
parallel, htmltools
testthat, covr, rhdf5 (>= 2.20.2), rbokeh, knitr, visNetwork
testthat, covr, rhdf5 (>= 2.20.2), ggplot2, knitr, visNetwork
testthat, covr, rhdf5 (>= 2.20.2), ggplot2, knitr,
visNetwork, rmarkdown
testthat, covr, rhdf5 (>= 2.20.2), ggplot2, hexbin, knitr,
visNetwork, rmarkdown
ggplot2, knitr, bookdown, rmarkdown, competitiontoolbox
testthat (>= 3.0.0), magrittr, knitr, rmarkdown, covr
testthat, knitr, rbenchmark, R6, rmarkdown
covr, dplyr (>= 0.8-3), ggplot2 (>= 3.3.1), knitr, magrittr,
mapview, rmarkdown (>= 2.6), scales, testthat, units
covr, dplyr (>= 0.8-3), ggplot2 (>= 3.3.1), knitr, rmarkdown
(>= 2.6), scales, testthat, units
survival, survivalROC, ggplot2, testthat (>= 3.0.0), knitr,
rmarkdown, glmnet, covr, units, tibble
survival, SurvMetrics, ggplot2, testthat (>= 3.0.0), knitr,
rmarkdown, glmnet, covr, units, tibble
testthat, knitr, rmarkdown, psych, ez, tidyverse, MBESS
testthat, knitr, rmarkdown, psych, ez, tidyr, forcats, MBESS
testthat, dplyr, knitr, rmarkdown, shiny
testthat, dplyr, knitr, rmarkdown, shiny, gapminder,
highcharter
testthat, dplyr, knitr, scales, rmarkdown, gapminder,
highcharter
testthat, dplyr, knitr, scales, rmarkdown
testthat, knitr, scales, rmarkdown, covr
ape (>= 3.0), knitr, rmarkdown, testthat
ape (>= 4.0), knitr, rmarkdown, testthat
knitr, MASS, vcdExtra, nnet, survival, pROC
tkrplot, jpeg, png, splines, utils, tcltk
recipes (>= 0.1.7), testthat (>= 2.1.0), knitr, rmarkdown,
covr, AmesHousing, spelling, xml2, modeldata
covr, isotree, knitr, modeldata, recipes (>= 0.1.7),
rmarkdown, spelling, testthat (>= 3.0.0), xml2
datasets, FedData, ggplot2, nasapower, raster, rmarkdown, sp,
spData, sf
datasets, FedData, ggplot2, listviewer, nasapower, raster,
reactR, rmarkdown, sp, spData, sf
BayesianTools, datasets, FedData, ggplot2, GSODR, listviewer,
mvtnorm, nasapower, nloptr, raster, reactR, rmarkdown, sp,
spData, sf
BayesianTools, datasets, daymetr, FedData, ggplot2, GSODR,
listviewer, maps, mvtnorm, nasapower, nloptr, raster, reactR,
rmarkdown, soilDB, sp, spData, sf
BayesianTools, datasets, daymetr, FedData, ggplot2, GSODR,
listviewer, maps, mvtnorm, nasapower, nloptr, raster, reactR,
rmarkdown, sensitivity, soilDB, sp, spData, sf
BayesianTools, chirps, datasets, daymetr, FedData, ggplot2,
GSODR, listviewer, maps, mvtnorm, nasapower, nloptr, raster,
reactR, rmarkdown, sensitivity, soilDB, sp, spData, sf
BayesianTools, chirps, datasets, daymetr, FedData, ggplot2,
GSODR, listviewer, maps, mvtnorm, nasapower, nloptr, reactR,
rmarkdown, sensitivity, soilDB, sp, spData, sf, ucminf
testthat (>= 2.1.0), survey, srvyr, vdiffr, covr, outbreaks,
knitr, rmarkdown
RColorBrewer, colorspace, maptools, foreign, doMC, foreach
RColorBrewer, colorspace, maptools, rgdal, foreign, MASS,
ape, plotrix, foreach, doMC, SSOAP, XML, RCurl
RColorBrewer, colorspace, maptools, rgdal, foreign, MASS,
ape, plotrix, foreach, doSMP, SSOAP, XML, RCurl, RODBC
RColorBrewer, colorspace, maptools, rgdal, foreign, MASS,
ape, plotrix, foreach, doSMP, SSOAP, XML, RCurl, RODBC, rgeos
scales, RColorBrewer, colorspace, maptools, rgdal, foreign,
MASS, ape, plotrix, foreach, doSMP, SSOAP, XML, RCurl, RODBC,
rgeos
scales, RColorBrewer, colorspace, maptools, foreign, MASS,
ape, plotrix, rgeos, soilDB
scales, RColorBrewer, colorspace, maptools, foreign, MASS,
ape, plotrix, rgeos, soilDB, latticeExtra, digest
colorspace, maptools, foreign, ape, soilDB, latticeExtra,
maps, compositions, sharpshootR, markovchain
colorspace, maptools, foreign, ape, soilDB, latticeExtra,
maps, compositions, sharpshootR, markovchain, xtable
colorspace, maptools, foreign, ape, soilDB, latticeExtra,
maps, compositions, sharpshootR, markovchain, xtable, testthat
colorspace, maptools, foreign, ape, soilDB, latticeExtra,
maps, compositions, sharpshootR, markovchain, xtable, testthat,
Gmedian, farver
colorspace, maptools, foreign, ape, soilDB, latticeExtra,
maps, compositions, sharpshootR, markovchain, xtable, testthat,
Gmedian, farver, Hmisc
RColorBrewer, colorspace, maptools, foreign, MASS, ape,
plotrix, rgeos, soilDB, latticeExtra, digest, lattice
colorspace, maptools, foreign, ape, soilDB, latticeExtra,
maps, compositions, sharpshootR, markovchain, xtable, testthat,
Gmedian, farver, Hmisc, rlang, data.table, tibble,
RColorBrewer, scales, digest, MASS, mpspline2, soiltexture
colorspace, maptools, foreign, ape, soilDB, latticeExtra,
maps, compositions, sharpshootR, markovchain, xtable, testthat,
Gmedian, farver, Hmisc, rlang, tibble, RColorBrewer, scales,
digest, MASS, mpspline2, soiltexture, gower
colorspace, ape, soilDB, latticeExtra, tactile, compositions,
sharpshootR, markovchain, xtable, testthat, Gmedian, farver,
Hmisc, tibble, RColorBrewer, scales, digest, MASS, mpspline2,
soiltexture, gower
RColorBrewer, colorspace, maptools, foreign, MASS, ape,
plotrix, rgeos, soilDB, latticeExtra, digest, lattice, maps
RColorBrewer, colorspace, maptools, foreign, MASS, ape,
rgeos, soilDB, latticeExtra, digest, lattice, maps
colorspace, maptools, foreign, MASS, ape, rgeos, soilDB,
latticeExtra, digest, maps
colorspace, maptools, foreign, ape, soilDB, latticeExtra,
digest, maps
colorspace, maptools, foreign, ape, soilDB, latticeExtra,
maps, compositions
colorspace, maptools, foreign, ape, soilDB, latticeExtra,
digest, maps, compositions
colorspace, maptools, foreign, ape, soilDB, latticeExtra,
maps, compositions, sharpshootR
ca, circular, plotrix, MASS, spatstat, rgl
RBGL, knitr, covr, rmarkdown, markdown, testthat (>= 3.0.0)
RCurl, MASS, broom, caret, covr, gtsummary, performance,
kableExtra
shiny, testthat, ggplot2, dplyr, datasets
shiny, dplyr, testthat, ggplot2, devtools, knitr
shiny, dplyr, testthat, ggplot2, devtools, knitr, markdown
tidyverse, leaflet, knitr, sf, tigris, testthat (>= 2.1.0),
rmarkdown, data.table, formattable, geofacet, lubridate,
scales, viridis
ggplot2, forcats, leaflet, knitr, sf, tigris, testthat (>=
2.1.0), rmarkdown, data.table, formattable, geofacet,
lubridate, scales, viridis
ggplot2, forcats, leaflet, knitr, sf, tigris, testthat (>=
2.1.0), rmarkdown, data.table, formattable, geofacet,
lubridate, scales, viridis, zoo
testthat, data.table, dplyr, knitr, rmarkdown, ggplot2, covr
testthat, data.table, dplyr, knitr, rmarkdown, ggplot2
testthat, knitr, rmarkdown, dplyr, pkgdown, covr, ranger
colourpicker, curl, knitr, readr, lubridate, maps, markdown,
marmap (>= 1.0.4), ncdf4, ocedata, rgdal, rmarkdown, shiny, s2,
sf, testthat
colourpicker, curl, knitr, readr, lubridate, maps, markdown,
marmap (>= 1.0.4), ncdf4, ocedata, rgdal, rmarkdown, shiny, s2,
sf, testthat, shinyBS
testthat, grDevices, xaringan, aws.signature, aws.polly
testthat, grDevices, xaringan, aws.signature, aws.polly,
knitr
knitr, covr, testthat, pagedown, webshot, rstudioapi,
base64enc, xaringan
readr, spelling, dplyr, dbplyr, nycflights13, testthat,
knitr, covr, fs, rmarkdown, RSQLite, MonetDBLite (>= 0.5.0)
R.utils, progress, readr, spelling, dplyr, dbplyr,
nycflights13, testthat, knitr, covr, fs, rmarkdown, RSQLite,
duckdb, vroom, utf8, MonetDBLite
arrow, R.utils, progress, readr, spelling, dplyr, dbplyr,
nycflights13, testthat, knitr, covr, fs, rmarkdown, RSQLite,
duckdb, vroom, utf8, MonetDBLite
arrow, R.utils, progress, readr, spelling, dplyr, dbplyr,
nycflights13, testthat, knitr, covr, fs, rmarkdown, RSQLite,
duckdb, vroom, utf8, future.apply
progress, readr, spelling, dplyr, dbplyr, nycflights13,
testthat, knitr, covr, fs, rmarkdown, RSQLite, duckdb, vroom
progress, readr, spelling, dplyr, dbplyr, nycflights13,
testthat, knitr, covr, fs, rmarkdown, RSQLite, duckdb, vroom,
utf8
covr, knitr, nomnoml, rmarkdown, testthat
covr (>= 3.5.0), knitr, rmarkdown, testthat (>= 2.3.2)
covr, hms, lubridate, pkgdown, rmarkdown, roxygen2, testthat,
tibble, vctrs
covr, fs, hms, knitr, lubridate, rmarkdown, testthat, tibble,
vctrs
dplyr, hms, knitr, lubridate, rmarkdown, testthat, tibble
dplyr, hms, knitr, lubridate, pkgload, rmarkdown, testthat,
tibble
dplyr, hms, knitr, lubridate, pkgload, reticulate, rmarkdown,
testthat, tibble
decor, dplyr, hms, knitr, lubridate, pkgload, reticulate,
rmarkdown, testthat, tibble
blob, cli, DBI, dbplyr, decor, distro, dplyr, duckdb (>=
0.2.8), hms, knitr, lubridate, pillar, pkgload, reticulate,
rmarkdown, stringi, stringr, sys, testthat (>= 3.1.0), tibble,
tzdb, withr
decor, distro, dplyr, hms, knitr, lubridate, pkgload,
reticulate, rmarkdown, testthat, tibble
decor, distro, dplyr, hms, knitr, lubridate, pkgload,
reticulate, rmarkdown, stringr, testthat, tibble, withr
decor, distro, dplyr, hms, knitr, lubridate, pkgload,
reticulate, rmarkdown, stringi, stringr, testthat, tibble,
withr
DBI, dbplyr, decor, distro, dplyr, duckdb (>= 0.2.8), hms,
knitr, lubridate, pkgload, reticulate, rmarkdown, stringi,
stringr, testthat, tibble, withr
DBI, dbplyr, decor, distro, dplyr, duckdb (>= 0.2.8), hms,
knitr, lubridate, pkgload, reticulate, rmarkdown, stringi,
stringr, testthat (>= 3.1.0), tibble, withr
DBI, dbplyr, decor, distro, dplyr, duckdb (>= 0.2.8), hms,
knitr, lubridate, pkgload, reticulate, rmarkdown, stringi,
stringr, testthat (>= 3.1.0), tibble, tzdb, withr
cli, DBI, dbplyr, decor, distro, dplyr, duckdb (>= 0.2.8),
hms, knitr, lubridate, pillar, pkgload, reticulate, rmarkdown,
stringi, stringr, testthat (>= 3.1.0), tibble, tzdb, withr
knitr, rmarkdown, xtable, survival, testthat, coin, pROC,
MASS, gam, rpart
knitr, rmarkdown, xtable, pander, survival, testthat, coin,
pROC, MASS, gam, rpart
broom, stringr, magrittr, knitr, rmarkdown, xtable, pander,
survival, coin, pROC, MASS, gam, rpart
broom, stringr, magrittr, knitr, rmarkdown, xtable, pander,
survival, coin, pROC, MASS, gam, rpart, yaml
broom, stringr, magrittr, knitr, rmarkdown, xtable, pander,
survival (>= 2.41-3), coin, pROC, MASS, gam, rpart, yaml
broom, stringr, magrittr, knitr, rmarkdown, testthat, xtable,
pander, survival (>= 2.41-3), coin, pROC, MASS, gam, rpart,
yaml
broom, stringr, magrittr, rmarkdown, testthat, xtable,
pander, survival (>= 2.41-3), coin, pROC, MASS, gam, rpart,
yaml
broom (>= 0.7.0), stringr, magrittr, rmarkdown, testthat,
xtable, pander, survival (>= 2.41-3), coin, pROC, MASS, gam,
rpart, yaml
broom (>= 0.7.1), magrittr, rmarkdown, testthat, xtable,
pander, survival (>= 2.43-1), coin, pROC, MASS, splines, rpart,
yaml, geepack
testthat, knitr, rmarkdown, markdown, covr
pmml, XML, arulesViz, arulesCBA, testthat
pmml, XML, proxy, arulesViz, arulesCBA, testthat
graph, Rgraphviz, iplots, shiny, htmlwidgets
graph, Rgraphviz, iplots, shiny, shinythemes, htmlwidgets
graph, Rgraphviz, shiny, shinythemes, htmlwidgets
graph, datasets, Rgraphviz, shiny, shinythemes, htmlwidgets
datasets, graph, Rgraphviz, tidygraph, shiny, shinythemes,
htmlwidgets
odesolve, lmomco, cluster, boot, akima, tcltk
car, odesolve, lmomco, cluster, boot, akima, tcltk
car, deSolve, lmomco, cluster, boot, akima, mvtnorm, geoR
survival, Hmisc, xtable, R2HTML, hwriter, cacheSweave, weaver
survival, Hmisc, xtable, R2HTML, cacheSweave, weaver
covr, knitr, rmarkdown, spelling, testthat
callr, covr, cpp11, decor, htmlwidgets, knitr, mockery,
rmarkdown, rstudioapi, testthat (>= 3.0.0), withr
callr, covr, cpp11, decor, htmlwidgets, knitr, mockery,
rmarkdown, rstudioapi, testthat (>= 3.0.0)
ggplot2, knitr, rmarkdown, spelling, testthat (>= 3.0.1)
testthat, knitr, rmarkdown, ggplot2, REBayes
testthat, roxygen2, covr, knitr, rmarkdown, ggplot2, REBayes,
Rmosek
testthat, knitr, markdown, rmarkdown, covr
testthat, lattice, emmeans, lmerTest, pbkrtest
testthat, lattice, emmeans, lmerTest, pbkrtest, R.rsp
testthat (>= 3.0.2), knitr, rmarkdown, covr, withr, markdown
testthat (>= 3.0.2), knitr, rmarkdown, covr, withr, markdown,
devtools
knitr, testthat, magrittr, rmarkdown, tibble, plyr
gtable, iterators, klaR, stringi, knitr, rmarkdown
gtable, iterators, klaR, stringi, knitr, rmarkdown, testthat
knitr, kableExtra, rmarkdown, tinytest, microbenchmark,
r2sundials, paropt
knitr, kableExtra, rmarkdown, tinytest, microbenchmark,
r2sundials, ggplot2, RcppXPtrUtils
knitr, BiocStyle, RUnit, BiocGenerics, plotly, lazyeval,
dplyr, ggmap
knitr, formatR, webshot, BiocStyle, RUnit, BiocGenerics,
plotly, lazyeval, dplyr, ggmap
knitr, formatR, webshot, BiocStyle, RUnit, BiocGenerics,
plotly, lazyeval, dplyr, ggmap, rmarkdown
asteRiskData, knitr, formatR, webshot, BiocStyle, RUnit,
BiocGenerics, plotly, lazyeval, dplyr, ggmap, rmarkdown
asteRiskData, knitr, formatR, webshot, BiocStyle, RUnit,
BiocGenerics, plotly, lazyeval, dplyr, ggmap, rmarkdown,
markdown
covr, ggplot2, knitr, rmarkdown, spelling, testthat
covr, ggplot2, knitr, rmarkdown, spelling, testthat(>= 3.0.0)
covr, dplyr, ggplot2, knitr, rmarkdown, spelling, testthat(>=
3.0.0)
rmarkdown, testthat (>= 3.0.0), knitr, magrittr, audio,
profvis, covr
testthat, knitr, officer, flextable, survival, rmarkdown
directlabels, ggplot2, testthat, knitr, markdown, stringi,
re2, binsegRcpp, wbs, fpop, changepoint, LOPART, cumstats,
PeakSegDisk, callr
testthat, knitr, rmarkdown, vdiffr, rfishbase
zoo, knitr, chron, timeDate, testthat, rmarkdown
lifecycle, renv (>= 0.8.4), rstudioapi, testthat (>= 3.0.0)
aods3, breakDown, DALEX, e1071, gamlss, knitr, lme4, MASS,
mlbench, randomForest, rmarkdown, testthat, covr
aods3, breakDown, carData, DALEX, e1071, gamlss, knitr, lme4,
MASS, mlbench, randomForest, rmarkdown, testthat, covr
e1071, jsonlite, knitr, mgcv, r2d3, randomForest, rmarkdown,
testthat
jsonlite, knitr, mgcv, r2d3, randomForest, rmarkdown,
testthat, covr
jsonlite, knitr, markdown, mgcv, r2d3, randomForest,
rmarkdown, spelling, testthat, covr
knitr, rmarkdown, pander, testthat, agricolae
readr, data.table, knitr, rmarkdown, testthat, covr
covr, data.table, knitr, readr, rmarkdown, testthat
covr, data.table, knitr, readr, rmarkdown, testthat, unmarked
covr, data.table, knitr, readr, rmarkdown, sf, testthat,
unmarked
covr, knitr, rmarkdown, sf, testthat, unmarked
testthat, ggplot2, WeightedROC, penaltyLearning, knitr,
markdown, mlbench, directlabels, microbenchmark, covr
knitr, rmarkdown, testthat, MASS, forecast, caret, ipred,
flexclust, e1071, randomForest, rpart
testthat (>= 3.0.0), knitr, rmarkdown, markdown
knitr, finalfit, lme4, TH.data, rmarkdown, survminer, asaur
knitr, finalfit, lme4, TH.data, rmarkdown, survminer, asaur,
cmprsk, PairedData
akima, abind, testthat, spatstat, gear, knitr, rmarkdown
akima, abind, viridis, testthat, spatstat, gear, broom,
gridExtra, knitr, rmarkdown
abind, viridis, testthat, spatstat, gear, broom, gridExtra,
knitr, rmarkdown
abind, testthat, spatstat, gear, broom, gridExtra, knitr,
rmarkdown
abind, testthat, spatstat.geom, gear, broom, gridExtra,
knitr, rmarkdown
knitr, rmarkdown, markdown, moreparty, parallel, doParallel,
igraph
knitr, rmarkdown, parallel, igraph, moreparty, broom.mixed,
hardhat, glmnet, Ckmeans.1d.dp, ggstance, Matrix, BBmisc
knitr, rmarkdown, forcats, parallel, doParallel, igraph,
moreparty, broom.mixed, hardhat, flextable, glmnet,
Ckmeans.1d.dp, ggstance, Matrix, BBmisc, XICOR, readr,
lubridate
testthat, covr, knitr, rmarkdown, utils, ggplot2, dplyr,
styler, clipr, ore (>= 1.4.0)
testthat, covr, knitr, rmarkdown, utils, ggplot2, dplyr,
spelling
covr, dplyr, ggplot2, knitr, rmarkdown, spelling, styler (>=
1.3.2), testthat (>= 2.1), utils
covr, dplyr, ggplot2, knitr, rmarkdown, spelling, styler (>=
1.3.2), testthat (>= 3.0), utils
testthat (>= 2.1.0), covr, knitr, rmarkdown, utils, ggplot2,
dplyr, spelling
covr, dplyr, ggplot2, knitr, rmarkdown, spelling, styler (>=
1.3.2), testthat (>= 2.1.0), utils
dplyr, purrr, ggplot2, janitor, knitr, rmarkdown, lubridate,
tidyr, ggrepel
testthat, stats, roxygen2, knitr, covr, spelling
testthat, stats, roxygen2, knitr, rmarkdown, covr, spelling
testthat (>= 2.1.0), aws.ec2metadata (>= 0.1.6)
rmarkdown, knitr, testthat, dplyr, jsonlite
rmarkdown, knitr, testthat, dplyr, jsonlite, foreach,
iterators, utils
covr, knitr, rmarkdown, shinytest, testthat (>= 2.1.0)
ggplot2, knitr, kableExtra, viridis, png
ggplot2, knitr, kableExtra, viridis, png, testthat
rmarkdown, ggplot2, knitr, kableExtra, viridis, png, testthat
testthat, nlmixr2data, withr, lixoftConnectors, PKNCA (>=
0.10.0), pmxTools, knitr, rmarkdown, spelling, units
ape, ggplot2, hunspell, knitr, lintr, nLTT, rappdirs,
rmarkdown, spelling, testthat (>= 2.1.0)
ape, curl, ggplot2, hunspell, knitr, lintr, nLTT, rappdirs,
rmarkdown, spelling, testthat (>= 2.1.0)
ape, curl, ggplot2, hunspell, knitr, lintr, markdown, nLTT,
rappdirs, rmarkdown, spelling, testthat (>= 2.1.0)
batchtools, knitr, plotly, rpart, rpart.plot, simmer.plot,
stringr, testthat, tidyverse, usethis, vctrs
batchtools, knitr, rpart, rpart.plot, simmer.plot, stringr,
tidyverse, usethis, vctrs
batchtools, knitr, rmarkdown, rpart, rpart.plot, simmer.plot,
stringr, tidyverse, usethis, vctrs
testthat (>= 3.0.0), dplyr, knitr, rmarkdown
knitr, pander, fields, testthat, pcalg, rmarkdown
igraph, knitr, rmarkdown, speedglm, testthat
knitr, MASS, rmarkdown, testthat (>= 3.0.0)
magrittr (>= 1.5), pipeR (>= 0.6.0.6), testthat, shiny, knitr
testthat (>= 3.0.0), knitr, rmarkdown, png
testthat, AmesHousing, recipes, modeldata, covr, yardstick
AmesHousing, covr, modeldata, recipes, rmarkdown, spelling,
testthat, yardstick
AmesHousing, covr, modeldata, recipes, rmarkdown, spelling,
testthat (>= 3.0.0), yardstick
spelling, knitr, testthat, rmarkdown, covr, knitcitations
ape, ggthemes, knitr, philr, propr, reshape2, rmarkdown,
robCompositions, testthat
ape, ggthemes, knitr, philr, propr, reshape2, rmarkdown,
robCompositions, testthat, vegan
covr, devtools, knitr, ggplot2, rmarkdown, scales, XML
covr, devtools, knitr, ggplot2, rmarkdown, scales
akima, bit, fields, gamlss, geoR, rjags, BayesX, BayesXsrc,
mapdata, maps, maptools, raster, spatstat, spdep, zoo
akima, bit, fields, gamlss, geoR, rjags, BayesX, BayesXsrc,
mapdata, maps, maptools, raster, spatstat, spdep, zoo, keras,
splines2, sdPrior, glogis, glmnet
akima, bit, fields, gamlss, geoR, rjags, BayesX, BayesXsrc,
mapdata, maps, maptools, raster, spatstat, spdep, zoo, keras,
splines2, sdPrior, glogis, glmnet, scoringRules
akima, bit, ff, ffbase, fields, gamlss, geoR, rjags, BayesX,
BayesXsrc, mapdata, maps, maptools, raster, spatstat, spdep,
zoo, keras, splines2, sdPrior, glogis, glmnet, scoringRules
akima, bit, ff, ffbase, fields, gamlss, geoR, rjags, BayesX,
BayesXsrc, R2BayesX, mapdata, maps, maptools, raster, spatstat,
spdep, zoo, keras, splines2, sdPrior, glogis, glmnet,
scoringRules, knitr, MASS
akima, bit, ff, ffbase, fields, gamlss, geoR, rjags, BayesX,
BayesXsrc, R2BayesX, mapdata, maps, maptools, nnet, raster,
spatstat, spdep, zoo, keras, splines2, sdPrior, glogis, glmnet,
scoringRules, knitr, MASS
akima, ff, ffbase, fields, gamlss, geoR, rjags, BayesX,
BayesXsrc, R2BayesX, mapdata, maps, maptools, nnet, spatstat,
spdep, zoo, keras, splines2, sdPrior, statmod, glogis, glmnet,
scoringRules, knitr, MASS
akima, ff, ffbase, fields, gamlss, gamlss.dist, geoR, rjags,
BayesX, BayesXsrc, R2BayesX, mapdata, maps, maptools, nnet,
spatstat, spdep, zoo, keras, splines2, sdPrior, statmod,
glogis, glmnet, scoringRules, knitr, rmarkdown, MASS
akima, bit, ff, ffbase, fields, gamlss, gamlss.dist, geoR,
rjags, BayesX, BayesXsrc, R2BayesX, mapdata, maps, maptools,
nnet, spatstat, spdep, zoo, keras, splines2, sdPrior, statmod,
glogis, glmnet, scoringRules, knitr, rmarkdown, MASS
akima, bit, ff, ffbase, fields, gamlss, gamlss.dist, geoR,
rjags, BayesX, mapdata, maps, maptools, nnet, spatstat, spdep,
zoo, keras, splines2, sdPrior, statmod, glogis, glmnet,
scoringRules, knitr, rmarkdown, MASS, tensorflow
akima, bit, ff, fields, gamlss, gamlss.dist, geoR, rjags,
BayesX, mapdata, maps, maptools, nnet, spatstat, spdep, zoo,
keras, splines2, sdPrior, statmod, glogis, glmnet,
scoringRules, knitr, rmarkdown, MASS, tensorflow
bit, ff, fields, gamlss, gamlss.dist, interp, rjags, BayesX,
mapdata, maps, maptools, nnet, spatstat, spdep, zoo, keras,
splines2, sdPrior, statmod, glogis, glmnet, scoringRules,
knitr, rmarkdown, MASS, tensorflow
GLAD, DNAcopy, xtable, cghFLasso, flsa, cghseg, plyr,
ggplot2, RColorBrewer, reshape2, lattice
GLAD, DNAcopy, xtable, cghFLasso, flsa, cghseg, grid, plyr,
ggplot2 (>= 0.9.0), RColorBrewer, reshape2, lattice, proto
GLAD, DNAcopy, xtable, cghFLasso, flsa, cghseg, grid, gada,
plyr, ggplot2 (>= 0.9.0), RColorBrewer, reshape2, lattice,
proto
GLAD, DNAcopy, cghFLasso, flsa, cghseg, grid, gada, plyr,
ggplot2 (>= 0.9.0), RColorBrewer, reshape2, lattice, proto,
changepoint
ggplot2 (>= 2.2.1), knitr, rmarkdown, testthat
ggplot2 (>= 2.2.1), knitr, MASS, rmarkdown, testthat
dplyr, ggplot2, knitr, rmarkdown, scales, viridis
cowplot, ggplot2, grid, knitr, prettydoc
backports, base64enc, checkmate, knitr, microbenchmark,
openssl, rmarkdown, testthat
base64enc, checkmate, knitr, microbenchmark, openssl,
rmarkdown, testthat
testthat, tidyr, rmarkdown, knitr, Lahman
crayon (>= 1.3.4), curl, DBI, furrr, future, ggrepel, knitr,
pacman, qs (>= 0.25.1), reshape2, rmarkdown, RSQLite, stringi,
stats, testthat, usethis (>= 1.6.0), xml2 (>= 1.3), zoo
crayon (>= 1.3.4), curl, DBI, furrr, future, ggrepel, knitr,
pacman, progressr (>= 0.6.0), qs (>= 0.25.1), reshape2,
rmarkdown, RSQLite, scales, stringi, stats, testthat, usethis
(>= 1.6.0), xml2 (>= 1.3), zoo
gWidgets2, gWidgets2tcltk, IDPmisc, lattice, pls, MASS
rgdal, ggplot2, png, mapview, mapedit, testthat, covr
rgdal, ggplot2, png, mapview, mapedit, raster, stars,
testthat, covr
lubridate (>= 1.5.0), listviewer (>= 1.4.0), openxlsx (>=
4.0.17), shiny, knitr, rmarkdown, testthat
jsonlite (>= 1.1), lubridate (>= 1.5.0), listviewer (>=
1.4.0), openxlsx (>= 4.0.17), shiny, knitr, rmarkdown, testthat
jsonlite (>= 1.1), lubridate (>= 1.5.0), listviewer (>=
1.4.0), openxlsx (>= 4.0.17), flextable (>= 0.6.6), officer (>=
0.3.18), shiny, knitr, rmarkdown, testthat
knitr, rmarkdown, testthat (>= 3.0.0), doParallel
covr, future, knitr, rmarkdown, testthat, withr
covr, future, knitr, rmarkdown, testthat, tibble, withr
debugme, e1071, knitr, parallelMap, ranger, rmarkdown, rpart,
snow, testthat
debugme, doParallel, doMPI, e1071, foreach, future,
future.batchtools, knitr, parallelMap, ranger, rmarkdown,
rpart, snow, testthat, tibble
debugme, doMPI, doParallel, e1071, foreach, future,
future.batchtools, knitr, parallelMap, ranger, rmarkdown, Rmpi,
rpart, snow, testthat, tibble
debugme, e1071, knitr, parallelMap, ranger, rmarkdown, rpart,
snow, testthat, tibble
debugme, doParallel, doMPI, e1071, foreach,
future.batchtools, knitr, parallelMap, ranger, rmarkdown,
rpart, snow, testthat, tibble
testthat, knitr, rmarkdown, magrittr, plumber (>= 0.3.0)
testthat, rmarkdown, pkgdown, devtools, knitr
sparseHessianFD(>= 0.1.1), sparseMVN(>= 0.1.0), mvtnorm,
trustOptim (>= 0.8.3), plyr (>= 1.8)
sparseHessianFD(>= 0.2.0), sparseMVN(>= 0.2.0), mvtnorm,
trustOptim (>= 0.8.5), plyr (>= 1.8), dplyr, testthat, knitr,
R.rsp, MCMCpack
sparseHessianFD(>= 0.3.0), sparseMVN(>= 0.2.0), mvtnorm,
trustOptim (>= 0.8.5), plyr (>= 1.8), dplyr, testthat, knitr,
R.rsp, MCMCpack
mcmcse, coda, PottsUtils, knitr, rmarkdown, rstan, bayess,
lattice
mcmcse, coda, PottsUtils, knitr, rmarkdown, rstan, lattice
mcmcse, coda, PottsUtils, rstan, knitr, rmarkdown, lattice
bayesplot, knitr, rmarkdown, webshot, ggplot2, MASS
rworldmap, fields, snowFT, googleVis, rgdal, rworldxtra,
wpp2008
rworldmap, fields, snowFT, googleVis, rgdal, rworldxtra,
wpp2008, wpp2010
rworldmap, snowFT, googleVis, rgdal, rworldxtra, sp, wpp2008,
wpp2010
rworldmap, snowFT, googleVis, rgdal, rworldxtra, wpp2008,
wpp2010
rworldmap, snowFT, snow, googleVis, rgdal, rworldxtra, sp,
wpp2008, wpp2010
rworldmap, snowFT, googleVis, rgdal, rworldxtra, sp, wpp2012,
wpp2010
rworldmap, snowFT, googleVis, rgdal, rworldxtra, sp, wpp2015,
wpp2012, wpp2010
rworldmap, snowFT, googleVis, rgdal, rworldxtra, sp, wpp2015,
wpp2012, wpp2010, data.table
rworldmap, snowFT, googleVis, rgdal, rworldxtra, sp, wpp2017,
wpp2015, wpp2012, wpp2010, data.table
rworldmap, snowFT, googleVis, rgdal, sp, wpp2017, wpp2015,
wpp2012, wpp2010, ggplot2
knitr, rmarkdown, shiny, highcharter, DT, shinydashboard,
dashboardthemes, shinyalert, shinyjs, openxlsx, tidyverse
testthat, parallel, knitr, rmarkdown, MARSS
covr, devtools, future, knitr, recipes, rmarkdown, roxygen2,
rstan, spelling, testthat, workflows
metafor, compute.es, knitr, rmarkdown, R.rsp
tidymodels, tidyverse, lubridate, knitr, rmarkdown, roxygen2,
testthat (>= 3.0.0), covr
covr, testthat, spelling, knitr, rmarkdown, ggforce,
RcppArmadillo
covr, testthat, spelling, knitr, rmarkdown, ggforce,
RcppArmadillo, shinyWidgets, xts, htmltools, shinythemes,
progressr
covr, testthat, spelling, knitr, rmarkdown, ggforce,
RcppArmadillo, xts, htmltools, shinythemes, DT, datamods,
viridis
rstan, knitr, rmarkdown, testthat (>= 3.0.0)
testthat, covr, knitr, rmarkdown, markdown, vdiffr, ggplot2
ggfortify, gridExtra (>= 2.2.1), hexbin, knitr (>= 1.16), loo
(>= 2.0.0), RColorBrewer, rmarkdown (>= 1.0.0), rstan (>=
2.17.1), rstanarm (>= 2.17.4), rstantools (>= 1.5.0), scales,
shinystan (>= 2.3.0), survival, testthat (>= 2.0.0), vdiffr (>=
1.0.2)
gridExtra (>= 2.2.1), hexbin, knitr (>= 1.16), loo (>=
2.0.0), RColorBrewer, rmarkdown (>= 1.0.0), rstan (>= 2.17.1),
rstanarm (>= 2.17.4), rstantools (>= 1.5.0), scales, shinystan
(>= 2.3.0), testthat (>= 2.0.0), vdiffr
ggfortify, gridExtra (>= 2.2.1), hexbin, knitr (>= 1.16), loo
(>= 2.0.0), RColorBrewer, rmarkdown (>= 1.0.0), rstan (>=
2.17.1), rstanarm (>= 2.17.4), rstantools (>= 1.5.0), scales,
shinystan (>= 2.3.0), survival, testthat (>= 2.0.0), vdiffr
brms, broom, covr, dplyr, tidyr, ggplot2, ggridges, knitr,
rmarkdown, rstanarm, stringr, testthat
BayesFactor, bayesQR, blavaan, bridgesampling, brms, dplyr,
effectsize, emmeans, GGally, ggplot2, ggridges, httr,
KernSmooth, knitr, lavaan, lme4, logspline, MASS, mclust,
mediation, modelbased, parameters, performance, rmarkdown,
rstan, rstanarm, see, spelling, stringr, testthat, tidyr,
tweedie
BayesFactor, bayesQR, blavaan, bridgesampling, brms, dplyr,
effectsize, emmeans, GGally, ggdist, ggplot2, ggridges, httr,
KernSmooth, knitr, lavaan, lme4, logspline, MASS, mclust,
mediation, modelbased, parameters, performance, rmarkdown,
rstan, rstanarm, see, spelling, stringr, testthat, tidyr,
tweedie
BayesFactor, bayesQR, blavaan, bridgesampling, brms, dplyr,
effectsize, emmeans, gamm4, GGally, ggdist, ggplot2, ggridges,
glmmTMB, httr, KernSmooth, knitr, lavaan, lme4, logspline,
MASS, mclust, mediation, modelbased, parameters, patchwork,
performance, poorman, quadprog, posterior, rmarkdown, rstan,
rstanarm, see, spelling, stringr, testthat, tidyr, tweedie
BayesFactor, bayesQR, bayesplot, BH, blavaan, bridgesampling,
brms, effectsize, emmeans, gamm4, ggdist, ggplot2, glmmTMB,
httr, KernSmooth, knitr, lavaan, lme4, logspline, MASS, mclust,
mediation, modelbased, parameters, patchwork, performance,
quadprog, posterior, RcppEigen, rmarkdown, rstan, rstanarm,
see, testthat, tweedie
BayesFactor, bridgesampling, brms, broom, covr, dplyr, tidyr,
GGally, ggplot2, ggridges, KernSmooth, knitr, lme4, logspline,
see, rmarkdown, rstan, rstanarm, stringr, testthat
BayesFactor, bridgesampling, brms, broom, covr, dplyr,
emmeans, tidyr, GGally, ggplot2, ggridges, KernSmooth, knitr,
lme4, logspline, see, rmarkdown, rstan, rstanarm, stringr,
testthat
BayesFactor, bridgesampling, brms, broom, covr, dplyr,
emmeans, GGally, ggplot2, ggridges, KernSmooth, knitr, lme4,
logspline, performance, rmarkdown, rstan, rstanarm, see,
stringr, testthat, tidyr
BayesFactor, bridgesampling, brms, broom, covr, dplyr,
emmeans, GGally, ggplot2, ggridges, KernSmooth, knitr, MASS,
mclust, lme4, logspline, performance, rmarkdown, rstan,
rstanarm, see, stringr, testthat, tidyr
BayesFactor, bridgesampling, brms, broom, covr, dplyr,
emmeans, GGally, ggplot2, ggridges, KernSmooth, knitr, MASS,
mclust, modelbased, lme4, logspline, performance, rmarkdown,
rstan, rstanarm, see, stringr, testthat, tidyr, tweedie
BayesFactor, bayesQR, bridgesampling, brms, broom, covr,
dplyr, emmeans, GGally, ggplot2, ggridges, KernSmooth, knitr,
MASS, mclust, modelbased, lme4, logspline, performance,
rmarkdown, rstan, rstanarm, see, stringr, testthat, tidyr,
tweedie
BayesFactor, bayesQR, bridgesampling, brms, broom, covr,
dplyr, emmeans, GGally, ggplot2, ggridges, KernSmooth, knitr,
MASS, mclust, modelbased, lme4, logspline, mediation,
parameters, performance, rmarkdown, rstan, rstanarm, see,
stringr, testthat, tidyr, tweedie
BayesFactor, bayesQR, bridgesampling, brms, broom, covr,
dplyr, effectsize, emmeans, GGally, ggplot2, ggridges, httr,
KernSmooth, knitr, MASS, mclust, modelbased, lme4, logspline,
mediation, parameters, performance, rmarkdown, rstan, rstanarm,
see, stringr, testthat, tidyr, tweedie
BayesFactor, bayesQR, bridgesampling, brms, broom, covr,
dplyr, effectsize, emmeans, GGally, ggplot2, ggridges, httr,
KernSmooth, knitr, MASS, mclust, modelbased, lavaan, lme4,
logspline, mediation, parameters, performance, rmarkdown,
rstan, rstanarm, see, stringr, testthat, tidyr, tweedie
devtools, fitdistrplus, imputeTS, knitr, nlme, pander,
readxl, rmarkdown, testthat
devtools, fitdistrplus, imputeTS, knitr, nlme, pander,
readxl, rmarkdown, sessioninfo, testthat
devtools, fitdistrplus, grDevices, imputeTS, knitr, nlme,
pander, readxl, rmarkdown, sessioninfo, testthat
devtools, dplyr, fitdistrplus, grDevices, imputeTS, knitr,
nlme, pander, readxl, rmarkdown, sessioninfo, testthat
devtools, dplyr, fitdistrplus, grDevices, imputeTS, knitr,
markdown, nlme, pander, readxl, rmarkdown, sessioninfo,
testthat
devtools, imputeTS, markdown, nlme, rmarkdown, testthat
knitr, rmarkdown, testthat (>= 3.0.0), patchwork
aod, emdbook, rms, ggplot2, RUnit, MuMIn, AICcmodavg
aod, emdbook, rms, ggplot2, RUnit, MuMIn, AICcmodavg, Hmisc,
optimx
emdbook, rms, ggplot2, RUnit, MuMIn, AICcmodavg, Hmisc,
optimx (>= 2013.8.6), knitr
emdbook, rms, ggplot2, RUnit, MuMIn, AICcmodavg, Hmisc,
optimx (>= 2013.8.6), knitr, testthat
bibtex, GenSA, knitr, nloptr, rmarkdown, testthat
adagio, GenSA, knitr, nloptr, rmarkdown, testthat
adagio, GenSA, knitr, nloptr, progressr, rmarkdown, testthat
(>= 3.0.0)
adagio, GenSA, irace, knitr, nloptr, progressr, rmarkdown,
testthat (>= 3.0.0)
adagio, emoa, GenSA, irace, knitr, nloptr, progressr,
rmarkdown, testthat (>= 3.0.0)
adagio, emoa, GenSA, irace (>= 3.5), knitr, nloptr,
progressr, rmarkdown, testthat (>= 3.0.0)
knitr, rmarkdown, testthat, spelling, covr
stats, utils, graphics, grDevices, knitr, rmarkdown, pander
data.table, batchelor, kBET, splatter, scater, knitr, lisi,
harmony, dlfUtils, xtable
data.table, batchelor, kBET, scater, knitr, lisi, harmony,
dlfUtils, xtable
knitr, rmarkdown, ggplot2, testthat, covr
covr, ggplot2, knitr, rmarkdown, testthat
covr, ggplot2, knitr, rmarkdown, testthat, withr
DNAcopy, coda, strucchange, vegan, ggplot2, igraph
knitr, lubridate, magrittr, circular, digest, rmarkdown
contentid (>= 0.0.15), countrycode, covr, cowplot, DBI,
doParallel, duckdb (>= 0.3.2), knitr, maps, markdown,
rangeBuilder, rappdirs, raster, remotes, rmarkdown,
rnaturalearthdata, rvest, sp, testthat (>= 3.0.0), xml2
contentid (>= 0.0.15), countrycode, covr, cowplot, DBI,
doParallel, duckdb (>= 0.3.2), knitr, maps, markdown,
rangeBuilder, rappdirs, raster, remotes, rmarkdown,
rnaturalearthdata, rvest, sp, testthat (>= 3.0.0), xml2, rlang
(>= 1.0.1)
contentid (>= 0.0.15), countrycode, covr, cowplot, DBI,
doParallel, duckdb (>= 0.3.2), knitr (>= 1.31), maps, markdown,
rangeBuilder, rappdirs, raster, remotes, rlang (>= 1.0.1),
rmarkdown, rnaturalearthdata, rvest, sp, testthat (>= 3.0.0),
xml2
cld2, knitr, readr, rex, rjson, rmarkdown, rtweet, stringi,
stringr, testthat (>= 2.1.1), textutils, tuber
cld2, knitr, readr, rex, rjson, rmarkdown, rtweet, stringi,
stringr, testthat (>= 2.3.1), textutils, tuber
cld2, knitr, rex, rjson, rmarkdown, rtweet, stringi, stringr,
testthat (>= 2.3.1), tuber
testthat, knitr, rmarkdown, covr, vdiffr
knitr, rmarkdown, stringr, testthat, hexbin, igraph,
gridExtra
gridExtra, hexbin, igraph, knitr, rmarkdown, stringr,
testthat
spelling, gridExtra, hexbin, igraph, knitr, rmarkdown,
stringr, testthat
spelling, flowCore, gridExtra, hexbin, igraph, knitr,
rmarkdown, stringr, testthat
knitr, shiny, anoint, rmarkdown, pander, shinythemes, DT
knitr, shiny, anoint, rmarkdown, pander, shinythemes, DT,
testthat
knitr, shiny, rmarkdown, pander, shinythemes, DT, testthat
beautier, hunspell, knitr, rmarkdown, spelling, testit,
testthat, tracerer
hunspell, knitr, rmarkdown, spelling, testit, testthat (>=
2.1.0), tracerer
hunspell, knitr, markdown, rmarkdown, spelling, testit,
testthat (>= 2.1.0), tracerer
gganimate, gifski, plotly, png, testthat (>= 2.1.0)
devtools, knitr, ggplot2, lintr, rmarkdown, testthat
spelling, devtools, knitr, ggplot2, hunspell, lintr,
rmarkdown, testthat
spelling, devtools, knitr, ggplot2, hunspell, lintr,
rmarkdown, testthat (>= 2.1.0)
spelling, devtools, knitr, ggplot2, hunspell, lintr,
markdown, rmarkdown, testthat (>= 2.1.0)
spelling, devtools, knitr, ggplot2, hunspell, lintr,
markdown, readr, rmarkdown, testthat (>= 2.1.0)
openxlsx, knitr, dplyr, tidyr, rmarkdown
kableExtra, knitr, rmarkdown, rsvg, webshot
kableExtra, knitr, openxlsx, rmarkdown, rsvg, webshot
kableExtra, knitr, openxlsx, png (>= 0.1), rmarkdown, rsvg,
webshot
htmltools, kableExtra, openxlsx, png (>= 0.1), rmarkdown,
rstudioapi, rsvg, webshot
testthat, sp, raster, covr, knitr, rmarkdown, ggplot2,
rasterVis
testthat, sp, covr, knitr, rmarkdown, ggplot2, rasterVis
testthat, sf, sp, stars, covr, knitr, rmarkdown, ggplot2,
rasterVis
testthat, sp, raster, rgdal, covr, knitr, rmarkdown, ggplot2,
rasterVis, stars, terra
covr, dplyr, forcats, ggbeeswarm, ggplot2, ggridges, mockery,
scales, testthat, tidyr (>= 0.8.1), withr
covr, dplyr, forcats, ggbeeswarm, ggplot2, ggridges, mockery,
parallel, scales, testthat, tidyr (>= 0.8.1), vctrs, withr
covr, dplyr, forcats, ggbeeswarm, ggplot2, ggridges,
jsonlite, mockery, parallel, scales, testthat, tidyr (>=
0.8.1), vctrs, withr
coin, multcomp, lme4, e1071, entropy, archetypes, Rgraphviz
coin, multcomp, lme4, e1071, entropy, archetypes, Rgraphviz,
psychotree
RcppZiggurat, testthat, DT, knitr, ggplot2, shiny
RcppZiggurat, testthat, DT, knitr, ggplot2, shiny, rmarkdown
RcppZiggurat, testthat, DT, knitr, ggplot2, rmarkdown
RcppZiggurat, testthat, DT, knitr, ggplot2, rmarkdown, covr
covr, DT, ggplot2, knitr, RcppZiggurat, rmarkdown, testthat
testthat, DT, shiny, ggplot2, benchmarkme
testthat (>= 1.0.0), rmarkdown, knitr, ggplot2, tidyr
testthat (>= 2.1.0), rmarkdown, knitr, ggplot2, tidyr
RColorBrewer, pbapply, knitr, rmarkdown, gstat, RCurl
RColorBrewer, pbapply, knitr, rmarkdown, gstat, RCurl,
colorspace
RColorBrewer, pbapply, knitr, rmarkdown, gstat, RCurl,
colorspace, vioplot, spatstat.geom, TeachingDemos, ade4
RColorBrewer, pbapply, knitr, rmarkdown, gstat, RCurl,
colorspace, vioplot, spatstat.geom, TeachingDemos, ade4,
nortest, rstudioapi
knitr, rmarkdown, MASS, testthat, mgcv, parallel
knitr, rmarkdown, MASS, testthat, mgcv, parallel, ggplot2,
scales, rlang
knitr, rmarkdown, MASS, testthat, mgcv, parallel, ggplot2,
scales, rlang, covr
car, flexmix, lattice, lmtest, modeltools, party, sandwich,
strucchange
devtools, testthat, covr, knitr, rmarkdown, dplyr, tidyr
testthat, knitr, rmarkdown, ggplot2, tidyr
igraph, FactoMineR, factoextra, knitr, rmarkdown
knitr, rmarkdown, testthat (>= 2.1.0), plotly,
shinycssloaders, shinythemes, visNetwork, wordcloud2
knitr, rmarkdown, testthat (>= 2.1.0), shinycssloaders,
shinythemes, visNetwork, wordcloud2
knitr, rmarkdown, testthat (>= 2.1.0), shinycssloaders,
bslib, visNetwork, wordcloud2
knitr, rmarkdown, testthat (>= 2.1.0), shinycssloaders,
visNetwork, wordcloud2
knitr, rmarkdown, openalexR, testthat (>= 3.0.0),
shinycssloaders, visNetwork, wordcloud2
bookdown, INLA (>= 21.11.22), knitr, rmarkdown, testthat (>=
3.0.0), tmap
testthat, numbers (>= 0.6-6), RcppAlgos (>= 1.0.1)
snow (>= 0.4-2), Rmpi (>= 0.6-7), knitr, rmarkdown
shiny (>= 0.12.1), jsonlite (>= 1.0), httr (>= 1.2.1), knitr,
rmarkdown
shiny (>= 0.12.1), knitr, rmarkdown, testthat
shiny (>= 0.12.1), knitr, rmarkdown, testthat, data.table,
purrr
stats, spelling (>= 2.0), testthat (>= 2.0.1),
parallel, testthat, R.rsp, glmnet, survival, knitr, rmarkdown
parallel, testthat, glmnet, survival, knitr, rmarkdown
knitr, pillar (>= 1.6.0), rmarkdown, testthat
knitr, pillar (>= 1.6.3), rmarkdown, testthat
testthat, DBItest, dplyr (>= 0.7.0), dbplyr, withr, hms
DBItest, dbplyr, dplyr (>= 0.7.0), hms, testthat, withr,
covr, readr, sodium
covr, DBItest, dbplyr, dplyr (>= 0.7.0), hms, readr, sodium,
testthat (>= 2.1.0), withr
covr, DBItest, dbplyr (>= 1.3.0), dplyr (>= 0.7.0), hms,
readr, sodium, testthat (>= 2.1.0), withr
covr, DBItest, dbplyr (>= 1.3.0), dplyr (>= 0.7.0), blob,
hms, wk (>= 0.3.2), readr, sodium, testthat (>= 2.1.0), withr
blob, covr, DBItest, dbplyr (>= 1.3.0), dplyr (>= 0.7.0),
hms, readr, sodium, testthat (>= 2.1.0), withr, wk (>= 0.3.2)
blob, covr, DBItest, dbplyr (>= 2.2.1), dplyr (>= 0.7.0),
hms, readr, sodium, testthat (>= 3.0.0), withr, wk (>= 0.3.2)
spelling, covr, dplyr, gaston, Hmisc, magrittr, pcadapt,
testthat
spelling, covr, gaston, Hmisc, magrittr, pcadapt, testthat
bindata, covr, dbplyr (>= 1.4), dplyr, gaston, glue, Hmisc,
pcadapt (>= 4.1), quadprog, RhpcBLASctl, rmutil, RSpectra,
RSQLite, runonce, R.utils, spelling, testthat, tibble, xgboost
bindata, covr, dbplyr (>= 1.4), dplyr, gaston, glue, Hmisc,
microbenchmark, pcadapt (>= 4.1), quadprog, RhpcBLASctl,
rmutil, RSpectra, RSQLite, R.utils, spelling, testthat, tibble,
xgboost
bindata, covr, dbplyr (>= 1.4), dplyr, gaston, glue, Hmisc,
pcadapt (>= 4.1), RSQLite, spelling, testthat, xgboost
bindata, covr, dbplyr (>= 1.4), dplyr, gaston, glue, Hmisc,
pcadapt (>= 4.1), rmutil, RSpectra, RSQLite, R.utils, spelling,
testthat, xgboost
bindata, covr, dbplyr (>= 1.4), dplyr, gaston, glue, Hmisc,
pcadapt (>= 4.1), rmutil, RSpectra, RSQLite, R.utils, spelling,
testthat, tibble, xgboost
biglasso, bigmemory, covr, glmnet, grid, LiblineaR,
sparseSVM, testthat, viridis
spelling, biglasso, bigmemory, covr, glmnet, grid, LiblineaR,
ModelMetrics, sparseSVM, testthat, viridis
spelling, biglasso, bigmemory, covr, glmnet, grid, LiblineaR,
ModelMetrics, testthat, viridis
biglasso, bigmemory (>= 4.5.33), covr, glmnet, grid,
ModelMetrics, RcppEigen, RhpcBLASctl, spelling (>= 1.2),
testthat
bigalgebra, biglasso, bigmemory (>= 4.5.33), covr, glmnet,
hexbin, microbenchmark, ModelMetrics, RcppEigen, RhpcBLASctl,
spelling (>= 1.2), testthat
bigalgebra, biglasso, bigmemory (>= 4.5.33), covr, glmnet,
hexbin, memuse, microbenchmark, ModelMetrics, RcppEigen,
RhpcBLASctl, spelling (>= 1.2), testthat
biglasso, bigmemory (>= 4.5.33), covr, glmnet, hexbin,
memuse, ModelMetrics, RhpcBLASctl, spelling (>= 1.2), testthat
biglasso, bigmemory (>= 4.5.33), bigreadr (>= 0.2), covr,
data.table, glmnet, hexbin, memuse, ModelMetrics, RhpcBLASctl,
spelling (>= 1.2), testthat
biglasso, bigmemory (>= 4.5.33), bigreadr (>= 0.2), covr,
data.table, dplyr, glmnet, hexbin, memuse, ModelMetrics,
RhpcBLASctl, spelling (>= 1.2), testthat
biglasso, bigmemory (>= 4.5.33), bigreadr (>= 0.2), covr,
data.table, dplyr, glmnet, hexbin, memuse, ModelMetrics, ppcor,
RhpcBLASctl, spelling (>= 1.2), testthat
bigmemory (>= 4.5.33), bigreadr (>= 0.2), covr, data.table,
dplyr, glmnet, hexbin, memuse, ModelMetrics, plotly, ppcor,
RhpcBLASctl, spelling (>= 1.2), testthat
bigmemory (>= 4.5.33), bigreadr (>= 0.2), covr, data.table,
dplyr, glmnet, hexbin, memuse, ModelMetrics, ppcor,
RhpcBLASctl, spelling (>= 1.2), testthat
covr, mvtnorm, rrcov, spelling, testthat (>= 2.1.0)
covr, Gmedian, mvtnorm, rrcov, spelling, testthat (>= 2.1.0)
dbplyr, knitr, rmarkdown, roxygen2, testthat, covr
knitr, rmarkdown, roxygen2, testthat, covr
dodgr, knitr, rmarkdown, roxygen2, testthat, covr
RColorBrewer, ggplot2, shiny, testthat, knitr, rmarkdown,
prettydoc
RColorBrewer, shiny, testthat, knitr, rmarkdown, prettydoc
RColorBrewer, testthat, knitr, rmarkdown, covr
knitr, rmarkdown, gridExtra, metaboData (>= 0.2.3),
prettydoc, htmltools, covr, testthat, gifski
roxygen2 (>= 6.0.1), testthat, knitr, taxize, covr
testthat, devtools, roxygen2, knitr, rmarkdown, ggplot2, qpdf
covr, directlabels, ggplot2, testthat, knitr, markdown,
neuroblastoma
covr, penaltyLearning, directlabels, ggplot2, testthat,
knitr, markdown, neuroblastoma, changepoint, quadprog
discretization, partykit, Formula, testthat, BAMMtools, earth
discretization, Formula, testthat, BAMMtools, earth
XML, RCurl, lattice, ncdf, igraph, bigmemory, knitr, testthat
XML, RCurl, lattice, ncdf, igraph, bigmemory, knitr, testthat
(>= 0.9.1)
XML, RCurl, lattice, ncdf4, igraph, bigmemory, knitr,
testthat (>= 0.9.1)
XML, RCurl, lattice, ncdf4, igraph, bigmemory, knitr,
testthat (>= 0.9.1), httr
XML, RCurl, lattice, ncdf4, igraph, bigmemory, knitr,
testthat (>= 0.9.1), httr, msa, Biostrings
XML, RCurl, lattice, ncdf4, igraph, bigmemory, knitr,
rmarkdown, testthat (>= 0.9.1), httr, msa, Biostrings
knitr (>= 1.9), testthat (>= 0.9.1), rmarkdown
knitr, rlang, tidyselect, dplyr (>= 0.7-0), rmarkdown,
testthat, vdiffr
testthat (>= 3.0.0), covr, knitr, kableExtra, markdown,
pander, tinytex, xtable
doParallel, testthat, BiocStyle, knitr, covr
knitr (>= 1.6), rmarkdown (>= 0.3.3), devtools (>= 1.6.1),
testthat
knitr (>= 1.6), rmarkdown (>= 0.3.3), devtools (>= 1.6.1),
testthat, seqinr
knitr (>= 1.6), rmarkdown (>= 0.3.3), devtools (>= 1.6.1),
testthat, seqinr, magrittr
covr, crayon, getPass, mockery, testthat, vdiffr
ade4, nnet, MASS, gbm, mda, randomForest, foreign, Hmisc,
mgcv, gam, rpart
ade4, foreign, Hmisc, mgcv, gam, testthat, ecospat, caret,
maxent
ade4, foreign, Hmisc, mgcv, gam, testthat, ecospat, caret
ade4, foreign, Hmisc, mgcv, gam, testthat, ecospat
Hmisc, gam, mgcv, car, caret, dismo, ENMeval, doParallel,
rasterVis, ggpubr, testthat, knitr
soilphysics, tkrplot, tcltk, rpanel, lattice, SpatialEpi
soilphysics, tkrplot, tcltk, rpanel, lattice, SpatialEpi,
knitr, rmarkdown
dclone, R2WinBUGS, mice, micemd, miceadds, mitools, knitr,
rmarkdown
cowplot, covr, knitr, rmarkdown, sf, testthat
covr, cowplot, knitr, rmarkdown, sf, testthat
dplyr, knitr, rmarkdown, tidyr, sirt, ggplot2
testthat (>= 0.11.0), roxygen2, knitr, rmarkdown,
microbenchmark, bit64 (>= 4.0.0), ff (>= 4.0.0)
covr, ggplot2, httptest, knitr, rmarkdown, testthat,
tidyquant
crayon, git2r, ragg, testthat, vdiffr, withr
testthat, knitr, rmarkdown, devtools, profvis, microbenchmark
RQuantLib, timeDate, knitr, testthat, covr, rmarkdown
RQuantLib, timeDate, knitr, testthat, covr
testthat, ff, minqa, lbfgsb3, igraph, foreach
testthat, LaF (>= 0.6.3), knitr, rmarkdown
covr, ggplot2, glue, testthat (>= 2.1.0), keyring, knitr,
spelling, xml2
rstan, modeest, rjags, semTools, parallel
rstan(>= 2.16-1), modeest, rjags, semTools, parallel
runjags(>= 2.0.4-2), modeest(>= 2.3.3), rjags, semTools,
testthat(>= 2.0.0)
runjags(>= 2.0.4-2), modeest(>= 2.3.3), rjags, semTools,
tinytest
runjags(>= 2.0.4-2), rstan(>= 2.17-3), modeest, rjags,
semTools, parallel
runjags(>= 2.0.4-2), rstan(>= 2.17-3), modeest, rjags,
semTools, parallel, testthat(>= 2.0.0)
runjags(>= 2.0.4-2), modeest, rjags, semTools, parallel,
testthat(>= 2.0.0)
runjags(>= 2.0.4-2), modeest, rjags, semTools, testthat(>=
2.0.0)
runjags(>= 2.0.4-4), modeest(>= 2.3.3), rjags, cmdstanr,
semTools, tinytest
covr, crayon, pillar (>= 1.2.1), testthat
knitr, ggplot2 (>= 3.2.1), cowplot, automap (>= 1.0-14),
rgeos, future, future.apply, shiny (>= 1.0.3), shinydashboard,
geosphere, methods, rmarkdown, testthat, covr
knitr, ggplot2 (>= 3.2.1), cowplot, automap (>= 1.0-14),
rgeos, rgdal, future, future.apply, shiny (>= 1.0.3),
shinydashboard, geosphere, methods, rmarkdown, testthat, covr
testthat, rmarkdown, pkgdown, devtools, ggplot2, knitr
testthat, covr, parallel, knitr, rmarkdown
testit, shiny, miniUI, RcppTOML, stringr, rstudioapi, tools,
processx, later, xaringan
testit, shiny, miniUI, stringr, rstudioapi, tools, processx,
later
testit, shiny, miniUI, stringr, rstudioapi, tools, processx,
later, whoami
testit, shiny, miniUI, stringr, rstudioapi, tools, processx,
whoami
testit, shiny, miniUI, RcppTOML, stringr, rstudioapi, tools,
processx, later
miniUI, processx, rstudioapi, shiny, stringr, testit, tools,
whoami
covr, grid, ineq, jsonlite, lubridate, knitr, readr, readxl,
rmarkdown, shinyBS, shinythemes, stringr, tools, testthat,
tidyr, vdiffr
covr, descriptr, grid, ineq, jsonlite, lubridate, knitr,
readr, readxl, rmarkdown, shinyBS, shinythemes, stringr, tools,
testthat, tidyr, vdiffr
covr, descriptr, grid, ineq, jsonlite, lubridate, knitr,
readr, readxl, rmarkdown, shinyBS, shinythemes, stringr,
testthat, tidyr, vdiffr
covr, grid, ineq, knitr, rmarkdown, testthat, vdiffr
covr, grid, ineq, knitr, magrittr, rmarkdown, testthat,
vdiffr, xplorerr
testthat, leaflet, tigris, knitr, rmarkdown, tidyr, dplyr
testthat, knitr, rmarkdown, tidyr, dplyr
testthat, knitr, rmarkdown, tidyverse, tigris, leaflet
testthat, knitr, rmarkdown, tigris, leaflet
qgraph, knitr, rmarkdown, reshape2, dplyr, ReporteRs
qgraph, knitr, rmarkdown, reshape2, dplyr
reshape2, gridExtra, loo, mcmcse, bridgesampling, testthat,
knitr, rmarkdown
reshape2, gridExtra, bridgesampling, testthat, knitr,
rmarkdown, covr
INLA (>= 20.03.17), coda, extraDistr, RcppParallel, maps,
rstantools (>= 2.0.0), xtable, MASS, mnormt, loo, cowplot,
ggrepel, ggspatial, sf, knitr, rmarkdown, testthat, ggsn,
ggpubr, akima, tidyr, huxtable, RColorBrewer, magick, markdown,
bookdown, inlabru, BiocStyle
INLA (>= 20.03.17), coda, extraDistr, RcppParallel, maps,
rstantools (>= 2.0.0), xtable, MASS, loo, cowplot, ggrepel,
ggspatial, sf, knitr, rmarkdown, testthat, ggsn, interp, tidyr,
huxtable, RColorBrewer, magick, markdown, bookdown, BiocStyle
INLA (>= 22.5.7), coda, extraDistr, RcppParallel, maps,
rstantools (>= 2.0.0), xtable, MASS, loo, cowplot, ggrepel,
ggspatial, sf, knitr, rmarkdown, testthat, ggsn, interp, tidyr,
huxtable, RColorBrewer, magick, markdown, bookdown, BiocStyle
snow, graph, Rgraphviz (>= 1.20.3), lattice
snow, graph, grid, Rgraphviz (>= 1.30.1), lattice
snow, Rgraphviz (>= 1.30.1), lattice, gRain
parallel, graph, Rgraphviz, lattice, gRain
parallel, graph, Rgraphviz, lattice, gRain, ROCR
parallel, graph, Rgraphviz, lattice, gRain, ROCR, Rmpfr, gmp
parallel, graph, Rgraphviz, igraph, lattice, gRain (>=
1.3-3), ROCR, Rmpfr, gmp
bnlearn, gdata, graph, lavaan, parallel, plyr, Rgraphviz,
stats, semPlot, qgraph
popkin, testthat, knitr, rmarkdown, RColorBrewer
popkin (>= 1.2.2), testthat, knitr, rmarkdown, RColorBrewer
popkin (>= 1.3.9), testthat, knitr, rmarkdown, RColorBrewer
graph, Rgraphviz, qgraph, knitr, testthat
ggplot2, cytofan, dplyr, reshape2, RColorBrewer, knitr,
rmarkdown
ggplot2, dplyr, reshape2, RColorBrewer, knitr, rmarkdown
roxygen2 (>= 6.0.1), sangerseqR, knitr, testthat
roxygen2 (>= 6.1.1), sangerseqR, knitr, testthat, vcr (>=
0.2.0)
roxygen2 (>= 6.1.1), sangerseqR, knitr, testthat, vcr (>=
0.2.2)
sangerseqR, knitr, testthat, vcr (>= 0.5.4)
ggplot2, httptest, knitr, rmarkdown, testthat, curl
ccafs, covr, testthat, knitr, rmarkdown, ggplot2, ggthemes,
grid, gridExtra, maps, mapproj
covr, testthat, knitr, rmarkdown, ggplot2, ggthemes, grid,
gridExtra, maps, mapproj
ASGS.foyer, covr, testthat, knitr, rmarkdown, ggplot2,
ggthemes, grid, gridExtra, maps, mapproj
ASGS.foyer, covr, testthat, knitr, rmarkdown, ggplot2,
ggthemes, grid, gridExtra, maps, mapproj, rappdirs
ASGS.foyer, covr, testthat, knitr, rmarkdown, ggplot2,
ggthemes, grid, gridExtra, maps, mapproj, rappdirs, roxygen2
(>= 6.1.0)
ASGS.foyer, covr, testthat, knitr, rmarkdown, ggplot2,
ggthemes, grid, gridExtra, pkgdown, maps, mapproj, rappdirs,
roxygen2 (>= 6.1.0)
covr, knitr, lightgbm, modeldata, partykit, rmarkdown,
rsample, testthat (>= 3.0.0), tune
htmlwidgets, rstudioapi, servr (>= 0.3), shiny, testit (>=
0.5), tufte, webshot
htmlwidgets, rstudioapi, miniUI, rsconnect (>= 0.4.3), servr
(>= 0.3), shiny, testit (>= 0.5), tufte, webshot
htmlwidgets, rstudioapi, miniUI, rsconnect (>= 0.4.3), servr
(>= 0.13), shiny, testit (>= 0.9), tufte, webshot
bslib (>= 0.2.4), downlit (>= 0.2.1), htmlwidgets, jsonlite,
rstudioapi, miniUI, rsconnect (>= 0.4.3), servr (>= 0.13),
shiny, tibble, testit (>= 0.9), tufte, xml2, webshot
bslib (>= 0.2.4), downlit (>= 0.2.1), htmlwidgets, jsonlite,
rstudioapi, miniUI, rsconnect (>= 0.4.3), servr (>= 0.13),
shiny, tibble, testit (>= 0.9), tufte, xml2, webshot, testthat
(>= 3.0.0), withr (>= 2.3.0)
bslib (>= 0.2.4), downlit (>= 0.4.0), htmlwidgets, jsonlite,
rstudioapi, miniUI, rsconnect (>= 0.4.3), servr (>= 0.13),
shiny, tibble, testit (>= 0.9), tufte, xml2, webshot, testthat
(>= 3.1.0), withr (>= 2.3.0)
shiny, lobstr, magrittr, testthat (>= 3.0.0), knitr,
rmarkdown, flow
knitr, xtable, mlbench, nnet, class, e1071, randomForest
base, HSAUR2, roxygen2, parallel, knitr, rmarkdown,
mc.heterogeneity, testthat
base, HSAUR3, roxygen2, parallel, knitr, rmarkdown, testthat
testthat, covr, roxygen2, pkgdown, devtools, tinytest,
mockery, knitr, rmarkdown, minpack.lm, MASS
knitr, markdown, plsdof, prettydoc, rmarkdown
glasso, GGMncv, BDgraph, graphicalVAR, relaimpo, lavaan,
psychTools, huge
testthat, directlabels, profr, rasterVis, magrittr, dplyr,
knitr, rgrass7, rmarkdown
devtools, knitr, rmarkdown, R6, rlang, roxygen2 (>= 7.0.2),
shiny, testthat (>= 2.0.0)
devtools, knitr, rmarkdown, R6, rlang, roxygen2 (>= 7.0.2),
shiny, testthat (>= 3.0.3)
testthat, knitr, covr, rmarkdown, spelling
clipr (>= 0.3.0), testthat, knitr, rmarkdown, purrr, here,
conflicted, usethis, jsonlite, openssl, jose, sodium, gargle
(>= 0.3.0), png
clipr (>= 0.3.0), conflicted, gargle (>= 0.3.0), here, jose,
knitr, openssl, png, rmarkdown, sodium, testthat, usethis
dplyr, testthat, knitr, rmarkdown, tidyr
dplyr, testthat, knitr, rmarkdown, tidyr, shiny
rmarkdown, testthat, covr, bayesplot, kableExtra
Hmisc, RGtk2, ade4, boot, cairoDevice, expm, gridExtra,
mediation, oro.nifti, scales
Hmisc, RGtk2, ade4, boot, cairoDevice, car, expm, ggplot2,
ggrepel, gridExtra, mediation, oro.nifti, scales
knitr, rmarkdown, caret, randomForest, ranger
knitr, rmarkdown, e1071, kernlab, xgboost, caret,
randomForest, ranger
knitr, rmarkdown, e1071, kernlab, xgboost, caret,
randomForest, ranger, testthat
knitr, rmarkdown, e1071, kernlab, xgboost, caret,
randomForest, DALEX, ranger, testthat
corncob, covr, devtools, dplyr, DT, knitr, openxlsx, plyr,
RCurl, reshape2, R.rsp, remotes, rmarkdown, testthat, tidyverse
devtools, knitr, plyr, RCurl, rmarkdown, testthat, dplyr
testthat, covr, knitr, survival, gridExtra
base, gridExtra, knitr, rmarkdown, testthat
base, gridExtra, knitr, rmarkdown, testthat, breathteststan,
covr
base, gridExtra, knitr, rmarkdown, testthat(>= 2.99),
breathteststan, covr
ggplot2, shinystan, bayesplot, testthat, covr, knitr,
rmarkdown
ggplot2, shinystan, bayesplot, testthat, covr, knitr,
rmarkdown, breathtestcore(>= 0.4.1.0)
ggplot2, shinystan, bayesplot, testthat, covr, knitr,
rmarkdown, breathtestcore(>= 0.7.1.0)
ggplot2, shinystan, igraph, bayesplot, testthat, covr, knitr,
rmarkdown, RcppParallel (>= 5.0.1), breathtestcore(>= 0.8.1)
detectseparation, testthat, knitr, rmarkdown, covr
knitr, rmarkdown, gridExtra, png, jpeg, tibble, raster,
stringr
knitr, rmarkdown, reshape2, ggplot2, testthat
testthat, Rcpp, RcppEigen, R2jags, knitr, rmarkdown, R.rsp
testthat, Rcpp, RcppEigen, R2jags, knitr, rmarkdown, R.rsp,
BayesFactor, rstan
testthat, Rcpp, RcppEigen, R2jags, rjags, runjags, knitr,
rmarkdown, R.rsp, BayesFactor, rstan, rstanarm
testthat, Rcpp, RcppEigen, R2jags, rjags, runjags, knitr,
rmarkdown, R.rsp, BayesFactor, rstan, rstanarm, nimble,
MCMCpack
knitr, MASS, hexbin, testthat (>= 2.1.0)
knitr, fs (>= 1.5), testthat (>= 3.0.0), tibble (>= 3.1),
rmarkdown
ggplot2, knitr, rmarkdown, dplyr, testthat (>= 1.0.0)
ggplot2, knitr, rmarkdown, dplyr, testthat (>= 3.0.0), xml2
ggplot2, knitr, rmarkdown, dplyr, testthat (>= 3.0.1), xml2
testthat (>= 0.9.1), arm, mvtnorm, KernSmooth, R.rsp, knitr,
rmarkdown
testthat (>= 0.9.1), mvtnorm, KernSmooth, R.rsp, knitr,
rmarkdown
testthat (>= 0.9.1), RWiener, future, arm, spdep, mnormt,
MCMCglmm, ape, R.rsp, knitr, rmarkdown
testthat (>= 0.9.1), arm, mvtnorm, R.rsp, knitr, rmarkdown
testthat (>= 0.9.1), arm, mvtnorm, MCMCglmm, ape, R.rsp,
knitr, rmarkdown
shinystan (>= 2.2.1), testthat (>= 0.9.1), RWiener, future,
arm, spdep, mnormt, MCMCglmm, ape, R.rsp, knitr, rmarkdown
testthat (>= 0.9.1), RWiener, future, mice, arm, spdep,
mnormt, MCMCglmm, ape, R.rsp, knitr, rmarkdown
testthat (>= 0.9.1), RWiener, mice, spdep, mnormt, lme4,
MCMCglmm, splines2, ape, arm, statmod, digest, R.rsp, knitr,
rmarkdown
testthat (>= 0.9.1), emmeans (>= 1.4.2), RWiener, mice,
spdep, mnormt, lme4, MCMCglmm, splines2, ape, arm, statmod,
digest, R.rsp, knitr, rmarkdown
testthat (>= 0.9.1), emmeans (>= 1.4.2), cmdstanr (>=
0.0.0.9008), RWiener, rtdists, mice, spdep, mnormt, lme4,
MCMCglmm, splines2, ape, arm, statmod, digest, R.rsp, knitr,
rmarkdown
testthat (>= 0.9.1), emmeans (>= 1.4.2), cmdstanr (>= 0.1.3),
RWiener, rtdists, mice, spdep, mnormt, lme4, MCMCglmm,
splines2, ape, arm, statmod, digest, R.rsp, knitr, rmarkdown
testthat (>= 0.9.1), emmeans (>= 1.4.2), cmdstanr (>= 0.1.3),
RWiener, rtdists, mice, spdep, mnormt, lme4, MCMCglmm,
splines2, ape, arm, statmod, digest, diffobj, R.rsp, knitr,
rmarkdown
testthat (>= 0.9.1), emmeans (>= 1.4.2), cmdstanr (>= 0.4.0),
RWiener, rtdists, mice, spdep, mnormt, lme4, MCMCglmm,
splines2, ape, arm, statmod, digest, diffobj, R.rsp, gtable,
shiny, knitr, rmarkdown
testthat (>= 0.9.1), emmeans (>= 1.4.2), cmdstanr (>= 0.4.0),
projpred (>= 2.0.0), RWiener, rtdists, mice, spdep, mnormt,
lme4, MCMCglmm, splines2, ape, arm, statmod, digest, diffobj,
R.rsp, gtable, shiny, knitr, rmarkdown
testthat (>= 0.9.1), emmeans (>= 1.4.2), cmdstanr (>= 0.4.0),
projpred (>= 2.0.0), RWiener, rtdists, extraDistr, processx,
mice, spdep, mnormt, lme4, MCMCglmm, splines2, ape, arm,
statmod, digest, diffobj, R.rsp, gtable, shiny, knitr,
rmarkdown
testthat (>= 0.9.1), emmeans (>= 1.4.2), cmdstanr (>= 0.5.0),
projpred (>= 2.0.0), RWiener, rtdists, extraDistr, processx,
mice, spdep, mnormt, lme4, MCMCglmm, splines2, ape, arm,
statmod, digest, diffobj, R.rsp, gtable, shiny, knitr,
rmarkdown
testthat (>= 0.9.1), RWiener, future, mice, spdep, mnormt,
lme4, MCMCglmm, ape, arm, R.rsp, knitr, rmarkdown
testthat (>= 0.9.1), RWiener, future, mice, spdep, mnormt,
lme4, MCMCglmm, ape, arm, digest, R.rsp, knitr, rmarkdown
testthat (>= 0.9.1), RWiener, future, mice, spdep, mnormt,
lme4, MCMCglmm, ape, arm, statmod, digest, R.rsp, knitr,
rmarkdown
testthat (>= 0.9.1), RWiener, mice, spdep, mnormt, lme4,
MCMCglmm, ape, arm, statmod, digest, R.rsp, knitr, rmarkdown
testthat (>= 3.0.0), covr, withr, knitr, rmarkdown, margins,
betareg
AGD, ggplot2, grDevices, gridExtra, knitr, lattice, MASS,
Matrix, mice, mvtnorm, plyr, svglite, testthat, rmarkdown
AGD, bookdown, ggplot2, grDevices, gridExtra, knitr, lattice,
MASS, Matrix, mice, mvtnorm, plyr, svglite, testthat, rmarkdown
covr, gapminder, gghighlight (>= 0.1.0), knitr (>= 1.23),
lme4, modelr, readr (>= 1.3.1), rmarkdown (>= 1.14), spelling
(>= 2.1), testthat (>= 2.1.0), tsibbledata, vdiffr (>= 0.3.1)
markdown, covr, gapminder, gghighlight (>= 0.1.0), knitr (>=
1.23), lme4, modelr, readr (>= 1.3.1), rmarkdown (>= 1.14),
spelling (>= 2.1), testthat (>= 2.1.0), tsibbledata, vdiffr (>=
0.3.1)
knitr, survival, glmnet, lfe, Lahman, MASS, sp, maps,
maptools, multcomp, testthat, lme4, zoo, ggplot2
knitr, survival, gam, glmnet, lfe, Lahman, MASS, sp, maps,
maptools, multcomp, testthat, lme4, zoo, ggplot2
knitr, survival, gam, glmnet, lfe, Lahman, MASS, sp, maps,
maptools, multcomp, testthat, lme4, nlme, zoo, lmtest, plm,
biglm, ggplot2, nnet
knitr, boot, survival, gam, glmnet, lfe, Lahman, MASS, sp,
maps, maptools, multcomp, testthat, lme4, zoo, lmtest, plm,
biglm, ggplot2, nnet, geepack, AUC, ergm, network,
statnet.common, xergm, btergm, binGroup, Hmisc, bbmle, gamlss,
rstan, coda
knitr, boot, survival, gam, glmnet, lfe, Lahman, MASS, sp,
maps, maptools, multcomp, testthat, lme4, zoo, lmtest, plm,
biglm, ggplot2, nnet, geepack, AUC, ergm, network,
statnet.common, xergm, btergm, binGroup, Hmisc, bbmle, gamlss,
rstan, rstanarm, coda, gmm, Matrix, ks, purrr, orcutt, mgcv,
lmodel2, poLCA, mclust, covr
knitr, boot, survival, gam, glmnet, lfe, Lahman, MASS, sp,
maps, maptools, multcomp, testthat, lme4, zoo, lmtest, plm,
biglm, ggplot2, nnet, geepack, AUC, ergm, network,
statnet.common, xergm, btergm, binGroup, Hmisc, bbmle, gamlss,
rstan, rstanarm, brms, coda, gmm, Matrix, ks, purrr, orcutt,
mgcv, lmodel2, poLCA, mclust, covr, lsmeans, betareg, robust,
akima
knitr, boot, survival, gam, glmnet, lfe, Lahman, MASS, sp,
maps, maptools, multcomp, testthat, lme4, zoo, lmtest, plm,
biglm, ggplot2, nnet, geepack, AUC, ergm, network,
statnet.common, xergm, btergm, binGroup, Hmisc, bbmle, gamlss,
rstan, rstanarm, brms, coda, gmm, Matrix, ks, purrr, orcutt,
mgcv, lmodel2, poLCA, mclust, covr, lsmeans, emmeans, betareg,
robust, akima, AER, muhaz, speedglm, tibble
knitr, boot, survival, gam, glmnet, lfe, Lahman, MASS, rgeos,
sp, maps, maptools, multcomp, testthat, lme4, zoo, lmtest, plm,
biglm, ggplot2, nnet, geepack, AUC, ergm, network,
statnet.common, xergm, btergm, binGroup, Hmisc, bbmle, gamlss,
rstan, rstanarm, brms, coda, gmm, Matrix, ks, purrr, orcutt,
mgcv, lmodel2, poLCA, mclust, covr, lsmeans, emmeans, betareg,
robust, akima, AER, muhaz, speedglm, tibble
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot, brms,
btergm, coda, covr, emmeans, ergm, gam, gamlss, gamlss.data,
gamlss.dist, geepack, ggplot2, glmnet, gmm, Hmisc, knitr, ks,
Lahman, lfe, lme4, lmodel2, lmtest, lsmeans, maps, maptools,
MASS, Matrix, mclust, mgcv, muhaz, multcomp, network, nnet,
orcutt, plm, poLCA, purrr, quantreg, rgeos, robust, rstan,
rstanarm, sp, speedglm, statnet.common, survival, testthat,
tibble, xergm, zoo
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot, brms,
btergm, car, caret, coda, covr, e1071, emmeans, ergm, gam (>=
1.15), gamlss, gamlss.data, gamlss.dist, geepack, ggplot2,
glmnet, gmm, Hmisc, irlba, joineRML, Kendall, knitr, ks,
Lahman, lavaan, lfe, lme4, lmodel2, lmtest, lsmeans, maps,
maptools, MASS, Matrix, mclust, mgcv, muhaz, multcomp, network,
nnet, orcutt (>= 2.2), ordinal, plm, plyr, poLCA, psych,
quantreg, rgeos, rmarkdown, robust, rsample, rstan, rstanarm,
sp, speedglm, statnet.common, survey, survival, testthat,
tseries, xergm, zoo
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot, brms,
btergm, car, caret, coda, covr, e1071, emmeans, ergm, gam (>=
1.15), gamlss, gamlss.data, gamlss.dist, geepack, ggplot2,
glmnet, gmm, Hmisc, irlba, Kendall, knitr, ks, Lahman, lavaan,
lfe, lme4, lmodel2, lmtest, lsmeans, maps, maptools, MASS,
Matrix, mclust, mgcv, muhaz, multcomp, network, nnet, orcutt
(>= 2.2), ordinal, plm, plyr, poLCA, psych, quantreg, rgeos,
rmarkdown, robust, rsample, rstan, rstanarm, sp, speedglm,
statnet.common, survey, survival, testthat, tseries, xergm, zoo
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot, brms,
btergm, car, caret, coda, covr, e1071, emmeans, ergm, gam (>=
1.15), gamlss, gamlss.data, gamlss.dist, geepack, ggplot2,
glmnet, gmm, Hmisc, irlba, Kendall, knitr, ks, Lahman, lavaan,
lfe, lme4, lmodel2, lmtest, lsmeans, maps, maptools, MASS,
Matrix, mclust, mgcv, muhaz, multcomp, network, nnet, orcutt
(>= 2.2), ordinal, plm, plyr, poLCA, psych, quantreg, rgeos,
rmarkdown, rsample, rstan, rstanarm, sp, speedglm,
statnet.common, survey, survival, testthat, tseries, xergm, zoo
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot, brms,
btergm, car, caret, coda, covr, e1071, emmeans, ergm, gam (>=
1.15), gamlss, gamlss.data, gamlss.dist, geepack, ggplot2,
glmnet, gmm, Hmisc, irlba, Kendall, knitr, ks, Lahman, lavaan,
lfe, lme4, lmodel2, lmtest, lsmeans, maps, maptools, MASS,
Matrix, mclust, mgcv, muhaz, multcomp, network, nnet, orcutt
(>= 2.2), ordinal, plm, plyr, poLCA, psych, quantreg, rgeos,
rmarkdown, rsample, rstan, rstanarm, sp, speedglm,
statnet.common, survey, survival, testthat, tseries, zoo
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot,
btergm, car, caret, cluster, coda, covr, drc, e1071, emmeans,
epiR, ergm, fixest (>= 0.3.1), gam (>= 1.15), gamlss,
gamlss.data, gamlss.dist, gee, geepack, ggplot2, glmnet,
glmnetUtils, gmm, Hmisc, irlba, joineRML, Kendall, knitr, ks,
Lahman, lavaan, leaps, lfe, lm.beta, lme4, lmodel2, lmtest,
lsmeans, maps, maptools, MASS, Matrix, mclogit, mclust,
mediation, metafor, mfx, mgcv, modeldata, modeltests, muhaz,
multcomp, network, nnet, orcutt (>= 2.2), ordinal, plm, poLCA,
psych, quantreg, rgeos, rmarkdown, robust, robustbase, rsample,
sandwich, sp, spdep, spatialreg, speedglm, spelling,
statnet.common, survey, survival, systemfit, testthat (>=
2.1.0), tseries, zoo
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot,
btergm, car, caret, cluster, coda, covr, drc, e1071, emmeans,
epiR, ergm (>= 3.10.4), fixest (>= 0.5.0), gam (>= 1.15),
gamlss, gamlss.data, gamlss.dist, gee, geepack, ggplot2,
glmnet, glmnetUtils, gmm, Hmisc, irlba, joineRML, Kendall,
knitr, ks, Lahman, lavaan, leaps, lfe, lm.beta, lme4, lmodel2,
lmtest (>= 0.9.38), lsmeans, maps, maptools, margins, MASS,
Matrix, mclogit, mclust, mediation, metafor, mfx, mgcv, mlogit,
modeldata, modeltests, muhaz, multcomp, network, nnet, orcutt
(>= 2.2), ordinal, plm, poLCA, psych, quantreg, rgeos,
rmarkdown, robust, robustbase, rsample, sandwich, sp, spdep,
spatialreg, speedglm, spelling, survey, survival, systemfit,
testthat (>= 2.1.0), tseries, zoo
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot,
btergm, car, caret, cluster, cmprsk, coda, covr, drc, e1071,
emmeans, epiR, ergm (>= 3.10.4), fixest (>= 0.9.0), gam (>=
1.15), gee, geepack, glmnet, glmnetUtils, gmm, Hmisc, irlba,
joineRML, Kendall, knitr, ks, Lahman, lavaan, leaps, lfe,
lm.beta, lme4, lmodel2, lmtest (>= 0.9.38), lsmeans, maps,
maptools, margins, MASS, Matrix, mclust, mediation, metafor,
mfx, mgcv, mlogit, modeldata, modeltests, muhaz, multcomp,
network, nnet, orcutt (>= 2.2), ordinal, plm, poLCA, psych,
quantreg, rgeos, rmarkdown, robust, robustbase, rsample,
sandwich, sp, spdep (>= 1.1), spatialreg, speedglm, spelling,
survey, survival, systemfit, testthat (>= 2.1.0), tseries,
vars, zoo
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot,
btergm, car, caret, cluster, coda, covr, drc, e1071, emmeans,
epiR, ergm (>= 3.10.4), fixest (>= 0.5.0), gam (>= 1.15),
gamlss, gamlss.data, gamlss.dist, gee, geepack, ggplot2,
glmnet, glmnetUtils, gmm, Hmisc, irlba, joineRML, Kendall,
knitr, ks, Lahman, lavaan, leaps, lm.beta, lme4, lmodel2,
lmtest (>= 0.9.38), lsmeans, maps, maptools, margins, MASS,
Matrix, mclust, mediation, metafor, mfx, mgcv, mlogit,
modeldata, modeltests, muhaz, multcomp, network, nnet, orcutt
(>= 2.2), ordinal, plm, poLCA, psych, quantreg, rgeos,
rmarkdown, robust, robustbase, rsample, sandwich, sp, spdep,
spatialreg, speedglm, spelling, survey, survival, systemfit,
testthat (>= 2.1.0), tseries, zoo
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot,
btergm, car, caret, cluster, cmprsk, coda, covr, drc, e1071,
emmeans, epiR, ergm (>= 3.10.4), fixest (>= 0.5.0), gam (>=
1.15), gamlss, gamlss.data, gamlss.dist, gee, geepack, ggplot2,
glmnet, glmnetUtils, gmm, Hmisc, irlba, joineRML, Kendall,
knitr, ks, Lahman, lavaan, leaps, lfe, lm.beta, lme4, lmodel2,
lmtest (>= 0.9.38), lsmeans, maps, maptools, margins, MASS,
Matrix, mclust, mediation, metafor, mfx, mgcv, mlogit,
modeldata, modeltests, muhaz, multcomp, network, nnet, orcutt
(>= 2.2), ordinal, plm, poLCA, psych, quantreg, Rchoice, rgeos,
rmarkdown, robust, robustbase, rsample, sandwich, sp, spdep,
spatialreg, speedglm, spelling, survey, survival, systemfit,
testthat (>= 2.1.0), tseries, vars, zoo
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot,
btergm, car, caret, cluster, cmprsk, coda, covr, drc, e1071,
emmeans, epiR, ergm (>= 3.10.4), fixest (>= 0.8.1), gam (>=
1.15), gee, geepack, ggplot2, glmnet, glmnetUtils, gmm, Hmisc,
irlba, joineRML, Kendall, knitr, ks, Lahman, lavaan, leaps,
lfe, lm.beta, lme4, lmodel2, lmtest (>= 0.9.38), lsmeans, maps,
maptools, margins, MASS, Matrix, mclust, mediation, metafor,
mfx, mgcv, mlogit, modeldata, modeltests, muhaz, multcomp,
network, nnet, orcutt (>= 2.2), ordinal, plm, poLCA, psych,
quantreg, Rchoice, rgeos, rmarkdown, robust, robustbase,
rsample, sandwich, sp, spdep, spatialreg, speedglm, spelling,
survey, survival, systemfit, testthat (>= 2.1.0), tseries,
vars, zoo
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot,
btergm, car, caret, cluster, cmprsk, coda, covr, drc, e1071,
emmeans, epiR, ergm (>= 3.10.4), fixest (>= 0.8.1), gam (>=
1.15), gee, geepack, ggplot2, glmnet, glmnetUtils, gmm, Hmisc,
irlba, joineRML, Kendall, knitr, ks, Lahman, lavaan, leaps,
lfe, lm.beta, lme4, lmodel2, lmtest (>= 0.9.38), lsmeans, maps,
maptools, margins, MASS, Matrix, mclust, mediation, metafor,
mfx, mgcv, mlogit, modeldata, modeltests, muhaz, multcomp,
network, nnet, orcutt (>= 2.2), ordinal, plm, poLCA, psych,
quantreg, Rchoice, rgeos, rmarkdown, robust, robustbase,
rsample, sandwich, sp, spdep (>= 1.1), spatialreg, speedglm,
spelling, survey, survival, systemfit, testthat (>= 2.1.0),
tseries, vars, zoo
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot,
btergm, car, caret, cluster, cmprsk, coda, covr, drc, e1071,
emmeans, epiR, ergm (>= 3.10.4), fixest (>= 0.9.0), gam (>=
1.15), gee, geepack, ggplot2, glmnet, glmnetUtils, gmm, Hmisc,
irlba, joineRML, Kendall, knitr, ks, Lahman, lavaan, leaps,
lfe, lm.beta, lme4, lmodel2, lmtest (>= 0.9.38), lsmeans, maps,
maptools, margins, MASS, Matrix, mclust, mediation, metafor,
mfx, mgcv, mlogit, modeldata, modeltests, muhaz, multcomp,
network, nnet, orcutt (>= 2.2), ordinal, plm, poLCA, psych,
quantreg, Rchoice, rgeos, rmarkdown, robust, robustbase,
rsample, sandwich, sp, spdep (>= 1.1), spatialreg, speedglm,
spelling, survey, survival, systemfit, testthat (>= 2.1.0),
tseries, vars, zoo
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot,
btergm, car, caret, cluster, cmprsk, coda, covr, drc, e1071,
emmeans, epiR, ergm (>= 3.10.4), fixest (>= 0.9.0), gam (>=
1.15), gee, geepack, ggplot2, glmnet, glmnetUtils, gmm, Hmisc,
irlba, joineRML, Kendall, knitr, ks, Lahman, lavaan, leaps,
lfe, lm.beta, lme4, lmodel2, lmtest (>= 0.9.38), lsmeans, maps,
maptools, margins, MASS, Matrix, mclust, mediation, metafor,
mfx, mgcv, mlogit, modeldata, modeltests, muhaz, multcomp,
network, nnet, orcutt (>= 2.2), ordinal, plm, poLCA, psych,
quantreg, rgeos, rmarkdown, robust, robustbase, rsample,
sandwich, sp, spdep (>= 1.1), spatialreg, speedglm, spelling,
survey, survival, systemfit, testthat (>= 2.1.0), tseries,
vars, zoo
AER, akima, AUC, bbmle, betareg, biglm, binGroup, boot,
btergm (>= 1.10.6), car, caret, cluster, cmprsk, coda, covr,
drc, e1071, emmeans, epiR, ergm (>= 3.10.4), fixest (>= 0.9.0),
gam (>= 1.15), gee, geepack, glmnet, glmnetUtils, gmm, Hmisc,
irlba, joineRML, Kendall, knitr, ks, Lahman, lavaan, leaps,
lfe, lm.beta, lme4, lmodel2, lmtest (>= 0.9.38), lsmeans, maps,
maptools, margins, MASS, Matrix, mclust, mediation, metafor,
mfx, mgcv, mlogit, modeldata, modeltests, muhaz, multcomp,
network, nnet, orcutt (>= 2.2), ordinal, plm, poLCA, psych,
quantreg, rgeos, rmarkdown, robust, robustbase, rsample,
sandwich, sp, spdep (>= 1.1), spatialreg, speedglm, spelling,
survey, survival, systemfit, testthat (>= 2.1.0), tseries,
vars, zoo
AER, AUC, bbmle, betareg, biglm, binGroup, boot, btergm (>=
1.10.6), car, caret, cluster, cmprsk, coda, covr, drc, e1071,
emmeans, epiR, ergm (>= 3.10.4), fixest (>= 0.9.0), gam (>=
1.15), gee, geepack, glmnet, glmnetUtils, gmm, Hmisc, irlba,
interp, joineRML, Kendall, knitr, ks, Lahman, lavaan, leaps,
lfe, lm.beta, lme4, lmodel2, lmtest (>= 0.9.38), lsmeans, maps,
maptools, margins, MASS, Matrix, mclust, mediation, metafor,
mfx, mgcv, mlogit, modeldata, modeltests, muhaz, multcomp,
network, nnet, orcutt (>= 2.2), ordinal, plm, poLCA, psych,
quantreg, rgeos, rmarkdown, robust, robustbase, rsample,
sandwich, sp, spdep (>= 1.1), spatialreg, speedglm, spelling,
survey, survival, systemfit, testthat (>= 2.1.0), tseries,
vars, zoo
AER, AUC, bbmle, betareg, biglm, binGroup, boot, btergm (>=
1.10.6), car, carData, caret, cluster, cmprsk, coda, covr, drc,
e1071, emmeans, epiR, ergm (>= 3.10.4), fixest (>= 0.9.0), gam
(>= 1.15), gee, geepack, glmnet, glmnetUtils, gmm, Hmisc,
irlba, interp, joineRML, Kendall, knitr, ks, Lahman, lavaan,
leaps, lfe, lm.beta, lme4, lmodel2, lmtest (>= 0.9.38),
lsmeans, maps, maptools, margins, MASS, mclust, mediation,
metafor, mfx, mgcv, mlogit, modeldata, modeltests, muhaz,
multcomp, network, nnet, orcutt (>= 2.2), ordinal, plm, poLCA,
psych, quantreg, rgeos, rmarkdown, robust, robustbase, rsample,
sandwich, sp, spdep (>= 1.1), spatialreg, speedglm, spelling,
survey, survival, systemfit, testthat (>= 2.1.0), tseries,
vars, zoo
broom.mixed, covr, datasets, forcats, gam, gee, geepack,
ggplot2, gtsummary, knitr, lavaan, lme4, MASS, nnet, ordinal,
rmarkdown, survey, survival, testthat
broom.mixed, covr, datasets, forcats, gam, gee, geepack,
ggplot2, gt, gtsummary, knitr, lavaan, lme4, MASS, mice, nnet,
ordinal, rmarkdown, survey, survival, testthat, spelling
biglm, biglmm, brms (>= 2.13.0), broom.mixed, cmprsk, covr,
datasets, emmeans, fixest (>= 0.10.0), forcats, gam, gee,
geepack, ggplot2, glmmTMB, glue, gt, gtsummary, knitr, lavaan,
lfe, lme4 (>= 1.1.28), logitr (>= 0.8.0), MASS, mgcv, mice,
multgee, nnet, ordinal, parameters, parsnip, plm, rmarkdown,
rstanarm, spelling, survey, survival, testthat, tidycmprsk,
VGAM
brms (>= 2.13.0), broom.mixed, cmprsk, covr, datasets,
emmeans, lfe, forcats, gam, gee, geepack, ggplot2, gt,
gtsummary, knitr, lavaan, lme4, MASS, mgcv, mice, nnet,
ordinal, rmarkdown, survey, survival, testthat, spelling
brms (>= 2.13.0), broom.mixed, cmprsk, covr, datasets,
emmeans, lfe, forcats, gam, gee, geepack, ggplot2, glue, gt,
gtsummary, knitr, lavaan, lme4, MASS, mgcv, mice, nnet,
ordinal, rmarkdown, survey, survival, testthat, spelling
brms (>= 2.13.0), broom.mixed, cmprsk, covr, datasets,
emmeans, lfe, forcats, gam, gee, geepack, ggplot2, glue, gt,
gtsummary, knitr, lavaan, lme4, MASS, mgcv, mice, nnet,
ordinal, parameters, rmarkdown, rstanarm, spelling, survey,
survival, testthat, VGAM
brms (>= 2.13.0), broom.mixed, cmprsk, covr, datasets,
emmeans, lfe, forcats, gam, gee, geepack, ggplot2, glmmTMB,
glue, gt, gtsummary, knitr, lavaan, lme4, MASS, mgcv, mice,
nnet, ordinal, parameters, rmarkdown, rstanarm, spelling,
survey, survival, testthat, VGAM
brms (>= 2.13.0), broom.mixed, cmprsk, covr, datasets,
emmeans, lfe, forcats, gam, gee, geepack, ggplot2, glmmTMB,
glue, gt, gtsummary, knitr, lavaan, lme4, MASS, mgcv, mice,
nnet, ordinal, parameters, plm, rmarkdown, rstanarm, spelling,
survey, survival, testthat, VGAM
brms (>= 2.13.0), broom.mixed, cmprsk, covr, datasets,
emmeans, forcats, gam, gee, geepack, ggplot2, glmmTMB, glue,
gt, gtsummary, knitr, lavaan, lfe, lme4 (>= 1.1.28), MASS,
mgcv, mice, nnet, ordinal, parameters, plm, rmarkdown,
rstanarm, spelling, survey, survival, testthat, tidycmprsk,
VGAM
biglm, biglmm, brms (>= 2.13.0), broom.mixed, cmprsk, covr,
datasets, emmeans, fixest (>= 0.10.0), forcats, gam, gee,
geepack, ggplot2, glmmTMB, glue, gt, gtsummary, knitr, lavaan,
lfe, lme4 (>= 1.1.28), MASS, mgcv, mice, nnet, ordinal,
parameters, parsnip, plm, rmarkdown, rstanarm, spelling,
survey, survival, testthat, tidycmprsk, VGAM
knitr, testthat, ggplot2, Matrix, MCMCglmm, lme4, rstan,
rstanarm, brms, mgcv, gamlss, lmerTest, glmmADMB
knitr, testthat, ggplot2, Matrix, MCMCglmm, lme4, rstan,
rstanarm, brms, mgcv, gamlss, lmerTest, glmmADMB, dotwhisker,
pander
knitr, testthat, ggplot2, Matrix, MCMCglmm, lme4, rstan,
rstanarm, brms, mgcv, gamlss, gamlss.data, lmerTest, glmmADMB,
glmmTMB, dotwhisker, pander, R2jags
knitr, testthat, ggplot2, Matrix, MCMCglmm, lme4, brms, mgcv,
gamlss, gamlss.data, lmerTest, pbkrtest, glmmADMB, glmmTMB,
dotwhisker, pander, R2jags, GLMMadaptive, rstan, rstanarm
brms, dotwhisker, knitr, testthat, gamlss, gamlss.data,
ggplot2, GLMMadaptive, glmmADMB, glmmTMB, lmerTest, lme4,
Matrix, MCMCglmm, mgcv, pander, pbkrtest, rstan, rstanarm,
R2jags, TMB, rmarkdown
brms, dotwhisker, knitr, testthat, gamlss, gamlss.data,
ggplot2, GLMMadaptive, glmmADMB, glmmTMB, lmerTest, lme4,
Matrix, MCMCglmm, mgcv, pander, pbkrtest, rstan, rstanarm,
rstantools, R2jags, TMB, rmarkdown
covr, gapminder, generics, ggplot2, knitr, lme4, rmarkdown,
spelling, stringr, testthat, tibble, tidyr
covr, gapminder, generics, ggplot2, knitr, lme4, rmarkdown,
spelling, stringr, testthat, tibble, tidyr, utils
generics, ggplot2, knitr, lme4, rmarkdown, spelling, stringr,
testthat
generics, ggplot2, knitr, lme4, rmarkdown, spelling, stringr,
testthat, tidyr
generics, ggplot2, knitr, lme4, rmarkdown, spelling,
testthat, tidyr
generics, ggplot2, knitr, lavaan, lme4, MASS, mixor,
rmarkdown, spelling, testthat, tidyr
generics, ggplot2, knitr, lavaan, lme4, MASS, mixor, orcutt,
rmarkdown, spelling, testthat, tidyr
generics, ggplot2, insight, knitr, lavaan, lme4, MASS, mixor,
orcutt, rmarkdown, spelling, testthat, tidyr
generics, ggplot2, lavaan, lme4, MASS, mixor, orcutt,
rmarkdown, spelling, testthat
generics, lavaan, lme4, MASS, mixor, rmarkdown, spelling,
testthat
generics, lavaan, lme4, MASS, rmarkdown, spelling, testthat
knitr, R.rsp, microbenchmark, rmarkdown, ggplot2
spelling, knitr, R.rsp, microbenchmark, rmarkdown, ggplot2
knitr, rmarkdown, reshape2, vsn, DESeq2, pasilla
rstudioapi, rio, dplyr, tidyr, stringr, forcats, data.table,
car, psych, afex, emmeans, effectsize, jtools, lavaan, lmtest,
lme4, lmerTest, nnet, MASS, GGally
rstudioapi, rio, dplyr, tidyr, stringr, forcats, data.table,
car, psych, afex, emmeans, effectsize, jtools, lavaan, lme4,
lmerTest, lmtest, vars, nnet, MASS, GGally
rstudioapi, rio, dplyr, tidyr, stringr, forcats, data.table,
car, psych, afex, emmeans, effectsize, mediation, interactions,
lavaan, jtools, texreg, lme4, lmerTest, lmtest, vars, nnet,
MuMIn, MASS, GGally
rstudioapi, pacman, rio, haven, foreign, readxl, openxlsx,
clipr, tibble, plyr, glue, crayon, afex, car, lmtest, lme4,
lmerTest, vars, mediation, interactions, lavaan, GPArotation,
jtools, texreg, MuMIn, BayesFactor, GGally
rstudioapi, pacman, rio, haven, foreign, readxl, openxlsx,
clipr, tibble, plyr, afex, car, phia, lmtest, lme4, vars,
GPArotation, jtools, texreg, MuMIn, BayesFactor, GGally
rstudioapi, pacman, rio, haven, foreign, readxl, openxlsx,
clipr, tibble, plyr, car, phia, lmtest, lme4, vars,
GPArotation, jtools, texreg, MuMIn, BayesFactor, GGally
pacman, tibble, haven, foreign, readxl, openxlsx, clipr,
lmtest, lme4, nnet, vars, phia, MASS, BayesFactor, GGally,
GPArotation
covr, modeldata, recipes, spelling, testthat, yardstick
covr, modeldata, purrr, recipes, spelling, testthat,
yardstick
knitr, rmarkdown, testthat (>= 2.1.0), covr, golem, DT,
thematic (>= 0.1.2), echarts4r
knitr, rmarkdown, testthat (>= 2.1.0), covr, golem, DT,
thematic (>= 0.1.2)
testthat (>= 3.0.0), knitr, rmarkdown, tibble, covr
testthat (>= 3.0.0), knitr, rmarkdown, tibble, covr, bslib
knitr, devtools, roxygen2, testthat (>= 2.1.0), covr,
rmarkdown, bayesplot, tidybayes, ggplot2, gridExtra (>= 2.3),
shinythemes (>= 1.1.2), ggfortify (>= 0.4.1), shinyjs (>= 1.1),
shinycssloaders (>= 0.3), plotly (>= 4.9.2.1), ggridges (>=
0.5.2), fmsb (>= 0.5.3), visdat (>= 0.5.3), DT (>= 0.14), tidyr
(>= 1.1.0), dplyr (>= 1.0.0), reshape2 (>= 1.4.4)
testthat, withr, processx, webshot2, bslib
shiny, rmarkdown, knitr, testthat, withr, rappdirs, curl
shiny (>= 1.6.0), rmarkdown (>= 2.7), thematic, knitr,
testthat, withr, rappdirs, curl
shiny (>= 1.6.0), rmarkdown (>= 2.7), thematic, knitr,
testthat, withr, rappdirs, curl, magrittr
KFAS (>= 1.2.1), knitr (>= 1.11), rmarkdown (>= 0.8.1),
testthat, bayesplot
bayesplot, KFAS (>= 1.2.1), knitr (>= 1.11), MASS, ramcmc,
rmarkdown (>= 0.8.1), sde, sitmo, testthat
KFAS (>= 1.2.1), knitr (>= 1.11), rmarkdown (>= 0.8.1),
testthat, bayesplot, sde, ramcmc, sitmo
dplyr, ggplot2 (>= 2.0.0), Hmisc, KFAS (>= 1.2.1), knitr (>=
1.11), MASS, ramcmc, rmarkdown (>= 0.8.1), sde, sitmo, testthat
covr, dplyr, ggplot2 (>= 2.0.0), Hmisc, KFAS (>= 1.2.1),
knitr (>= 1.11), MASS, ramcmc, rmarkdown (>= 0.8.1), sde,
sitmo, testthat
covr, dplyr, ggplot2 (>= 2.0.0), Hmisc, KFAS (>= 1.2.1),
knitr (>= 1.11), MASS, posterior, rmarkdown (>= 0.8.1), ramcmc,
sde, sitmo, testthat
covr, ggplot2 (>= 2.0.0), KFAS (>= 1.2.1), knitr (>= 1.11),
MASS, rmarkdown (>= 0.8.1), ramcmc, sde, sitmo, testthat
knitr, ssh, DT (>= 0.13), shiny (>= 1.0.0), shinyjqui,
igraph, graph, Rgraphviz
knitr, ssh, DT (>= 0.13), shiny (>= 1.0.0), shinyjqui,
igraph, graph, Rgraphviz, ggplot2, markdown
knitr, ssh, DT (>= 0.13), shiny (>= 1.0.0), shinyjqui,
igraph, graph, Rgraphviz, ggplot2, rmarkdown, markdown
JuliaCall, MASS, gamm4, glmmTMB, knitr, lmerTest, nlme, nnet,
parallel, pbkrtest
JuliaCall, MASS, gamm4, glmmTMB, knitr, lmerTest, nlme, nnet,
parallel, pbkrtest, rmarkdown
JuliaCall, MASS, gamm4, glmertree, glmmTMB, knitr, lmerTest,
nlme, nnet, parallel, pbkrtest, rmarkdown
GLMMadaptive, JuliaCall, MASS, gamm4, glmertree, glmmTMB,
knitr, lmerTest, nlme, nnet, parallel, partykit, pbkrtest,
rmarkdown
GLMMadaptive, JuliaCall, MASS, gamm4, glmertree, glmmTMB,
knitr, lmerTest, nnet, parallel, partykit, pbkrtest, rmarkdown
GLMMadaptive, JuliaCall, MASS, gamm4, glmertree, glmmTMB,
knitr, lmerTest, nnet, ordinal, parallel, partykit, pbkrtest,
rmarkdown
GLMMadaptive, MASS, gamm4, glmertree, glmmTMB, knitr,
lmerTest, nnet, ordinal, parallel, partykit, pbkrtest,
rmarkdown
GLMMadaptive, MASS, gamm4, glmertree, glmmTMB, knitr,
lmerTest, nnet, ordinal, parallel, partykit, pbkrtest,
rmarkdown, testthat
knitr, rmarkdown, roxygen2, testthat (>= 3.0.0), spelling
knitr, rmarkdown, roxygen2, testthat (>= 3.0.0), spelling,
pkgdown
rmarkdown, knitr, BiocManager, AnnotationDbi, org.Hs.eg.db,
org.Mm.eg.db
rmarkdown, knitr, shinythemes, BiocManager, AnnotationDbi,
org.Hs.eg.db, org.Mm.eg.db, readxl, testthat (>= 3.0.0)
testthat (>= 2.1.0), knitr, rmarkdown, covr, car, rsq
bonsai, butcher, callr, caret, covr, embed, h2o, keras,
kernlab, knitr, luz, MASS, modeldata, parsnip, recipes, renv,
rmarkdown, stacks, testthat (>= 3.0.0), tensorflow, torch,
torchvision, uwot, vetiver, workflows, xgboost
clisymbols, testthat (>= 2.1.0), parsnip, knitr, rmarkdown,
C50, kknn, glmnet, rpart, ranger, recipes, rsample, TH.data,
ipred, survival, MASS, QSARdata, caret, flexsurv, pkgload,
sparklyr, randomForest, kernlab, earth, covr, rstan, rstanarm,
e1071, nnet, xgboost, dplyr, mda
clisymbols, testthat (>= 2.1.0), parsnip, knitr, rmarkdown,
C50, kknn, rpart, ranger, recipes, rsample, TH.data, ipred,
survival, MASS, QSARdata, caret, flexsurv, pkgload, sparklyr,
randomForest, kernlab, earth, covr, e1071, nnet, xgboost,
dplyr, mda, NMF, dimRed, ddalpha, pls, fastICA, RSpectra, RANN
C50, caret, clisymbols, covr, ddalpha, dimRed, dplyr, e1071,
earth, fastICA, flexsurv, ipred, kernlab, kknn, knitr, MASS,
mda, modeldata, NMF, nnet, parsnip (>= 0.1.4), pkgload, pls,
QSARdata, randomForest, ranger, RANN, recipes, rmarkdown,
rpart, rsample, RSpectra, survival, testthat (>= 2.1.0),
TH.data, xgboost (>= 1.3.2.1)
C50, caret, clisymbols, covr, ddalpha, dimRed, dplyr, e1071,
earth, fastICA, flexsurv, ipred, kernlab, kknn, knitr, MASS,
mda, modeldata, NMF, nnet, parsnip (>= 0.1.4), pkgload, pls,
QSARdata, randomForest, ranger, RANN, recipes, rmarkdown,
rpart, rsample, RSpectra, survival (>= 3.2-10), testthat (>=
2.1.0), TH.data, xgboost (>= 1.3.2.1)
C50, caret, clisymbols, covr, ddalpha, dimRed, dplyr, e1071,
earth, fastICA, flexsurv, ipred, kernlab, kknn, knitr, MASS,
mda, modeldata, NMF, nnet, parsnip (>= 0.1.6), pkgload, pls,
QSARdata, randomForest, ranger, RANN, recipes, rmarkdown,
rpart, rsample, RSpectra, survival (>= 3.2-10), testthat (>=
2.1.0), TH.data, xgboost (>= 1.3.2.1)
C50, caret, clisymbols, covr, ddalpha, dimRed, dplyr, e1071,
earth, flexsurv, fs, ipred, kernlab, kknn, knitr, MASS, mda,
modeldata, nnet, parsnip (>= 0.1.6), pkgload, pls, QSARdata,
randomForest, ranger, RANN, recipes (>= 0.2.0), rmarkdown,
rpart, rsample, RSpectra, survival (>= 3.2-10), testthat (>=
3.0.0), TH.data, usethis (>= 1.5.0), xgboost (>= 1.3.2.1)
C50, caret, clisymbols, covr, ddalpha, dimRed, dplyr, e1071,
earth, flexsurv, fs, ipred, kernlab, kknn, knitr, MASS, mda,
mgcv, modeldata, nnet, parsnip (>= 0.1.6), pkgload, pls,
QSARdata, randomForest, ranger, RANN, recipes (>= 0.2.0),
rmarkdown, rpart, rsample, RSpectra, survival (>= 3.2-10),
testthat (>= 3.0.0), TH.data, usethis (>= 1.5.0), xgboost (>=
1.3.2.1)
Bchron, countrycode, dataverse, ggplot2, ggridges, knitr,
lwgeom, mapview, openxlsx, plyr, rgeos, rmarkdown,
rnaturalearth, rworldmap, rworldxtra, sf, stringdist, testthat
Bchron, countrycode, dataverse, ggplot2, ggridges, globe,
knitr, lwgeom, mapview, openxlsx, plyr, rgeos, rmarkdown,
rnaturalearth, rworldmap, rworldxtra, sf, stringdist, testthat
testthat, RColorBrewer, knitr, rmarkdown, webshot, purrr
testthat, RColorBrewer, knitr, rmarkdown, purrr
RCurl, foreach, doMC, multicore, ff, igraph, RSVGTipsDevice,
hwriter, trimcluster
RCurl, doMC, foreach, multicore, igraph, RSVGTipsDevice,
hwriter, ref, bigmemory, filehash
RCurl, doMC, foreach, multicore, igraph0, RSVGTipsDevice,
hwriter, ref, bigmemory, filehash
knitr, rmarkdown, shiny, shinycssloaders, foreign, readxl
knitr, markdown, shiny, shinycssloaders, foreign, readxl
knitr, markdown, shiny, shinycssloaders, foreign, readxl,
rmarkdown
knitr, shiny, shinycssloaders, foreign, readxl, rmarkdown
knitr, shiny, shinycssloaders, foreign, readxl, rmarkdown,
testthat
knitr, rmarkdown, testthat, covr, dbplyr, clusterProfiler,
igraph, org.Hs.eg.db, readxl, AnnotationDbi, BiocInstaller
knitr, rmarkdown, testthat, covr, dbplyr, igraph, readxl
knitr, rmarkdown, testthat, covr, readxl, AnnotationDbi,
org.Hs.eg.db, clusterProfiler
dplyr, tidyr, knitr, nnls, prettydoc, rmarkdown, listviewer,
testthat, ggplot2
dplyr, tidyr, knitr, nnls, prettydoc, plotly, rmarkdown,
listviewer, testthat, ggplot2
dplyr, tidyr, knitr, nnls, prettydoc, plotly, rmarkdown,
rootSolve, listviewer, testthat, ggplot2
dplyr, tidyr, knitr, nnls, prettydoc, plotly, rmarkdown,
rootSolve, listviewer, testthat, ggplot2, openxlsx
dplyr, tidyr, knitr, nnls, prettydoc, plotly, rmarkdown,
rootSolve, listviewer, testthat, ggplot2, openxlsx, graphics
testthat (>= 3.0.0), covr, knitr, rmarkdown, dplyr, ggplot2,
spelling, RColorBrewer
MASS, rpart, verification, ROC, ROCR, Epi, limma
testthat, covr, knitr, rmarkdown, spelling
covr, crayon, pingr, ps, testthat, withr
cliapp, covr, crayon, pingr, ps, testthat, withr
cliapp, covr, crayon, knitr, pingr, ps, rmarkdown, rprojroot,
spelling, testthat, tibble, withr
cliapp, covr, crayon, fansi, knitr, pingr, ps, rmarkdown,
rprojroot, spelling, testthat, tibble, withr
cliapp, covr, crayon, fansi, pingr, ps, rprojroot, spelling,
testthat, tibble, withr
cli, covr, crayon, fansi, pingr, ps, rprojroot, spelling,
testthat, tibble, withr (>= 2.3.0)
cli, covr, ps, rprojroot, spelling, testthat, withr (>=
2.3.0)
cli (>= 1.1.0), covr, mockery, ps, rprojroot, spelling,
testthat (>= 3.0.0), withr (>= 2.3.0)
asciicast, cli (>= 1.1.0), covr, mockery, ps, rprojroot,
spelling, testthat (>= 3.0.0), withr (>= 2.3.0)
knitr, rmarkdown, markdown, ragg, grid, covr, testthat (>=
3.0.0), patchwork, withr, dplyr, systemfonts, scales, extrafont
bookdown, devtools, gridExtra, knitr, mrgsolve, pkgdown,
rmarkdown, roxygen2, RxODE, stringr, testthat
bookdown, devtools, gridExtra, knitr, mrgsolve, pkgdown,
rmarkdown, roxygen2, RxODE, rxode2, stringr, testthat
devtools, knitr, pkgdown, rmarkdown, roxygen2, testthat, xfun
ncdf4, roxygen2, knitr, testthat, rmarkdown
unmarked, knitr, rmarkdown, raster, tibble, rgdal, lubridate,
taxize, ritis
knitr, lubridate, raster, rgdal, ritis, rmarkdown, taxize,
testthat, tibble, unmarked
unmarked, knitr, rmarkdown, raster, tibble, data.table,
rgdal, lubridate, taxize, ritis
knitr, lubridate, raster, rgdal, ritis, rmarkdown, taxize,
testthat, tibble, unmarked, zip, RSQLite
knitr, raster, rgdal, ritis, rmarkdown, taxize, testthat,
tibble, unmarked, zip, RSQLite, lattice, magick, tesseract,
snow, nimble, nimbleEcology, coda, rjags, snowfall, reshape2,
R.rsp
rmarkdown, knitr, future, tictoc, patchwork, tidyverse,
testthat (>= 3.0.0), stringr, magrittr, covr, picante, withr,
fs, readr, usethis, scales, colorBlindness
knitr, ggplot2, leaflet, rmarkdown, readr, rgdal, rgeos,
scales, sf, sp, tidyr
knitr, ggplot2, leaflet, mapdeck, rmarkdown, readr, rgdal,
rgeos, scales, sf, geojsonsf, tidyr
knitr, ggplot2, leaflet, mapdeck, rmarkdown, readr, rgdal,
rgeos, scales, sp, sf, geojsonsf, tidyr
knitr, ggplot2, leaflet, mapdeck, rmarkdown, readr, rgdal,
rgeos, scales, sp, sf, geojsonsf, tidyr, lwgeom
rgl, corrplot, knitr, rmarkdown, MASS, rpart, rpart.plot
knitr, rmarkdown, scales, tidyr, ggplot2
knitr, rmarkdown, scales, tidyr, ggplot2, dbplyr
shiny (>= 0.13.2), knitr, rmarkdown, testthat, limma,
grDevices, covr
shiny (>= 0.13.2), knitr, rmarkdown, dplyr, testthat, limma,
grDevices, covr
shiny (>= 0.13.2), knitr, rmarkdown, dplyr, testthat, limma,
grDevices, covr, magrittr
shiny (>= 0.13.2), knitr, rmarkdown, dplyr, testthat,
webshot, png, limma, grDevices, covr, magrittr
shiny (>= 1.0), knitr, rmarkdown, testthat, covr, webshot,
png, grid, limma, glue, dplyr, tibble, tidyr
shiny (>= 1.1.0), canvasXpress.data (>= 1.28.0), knitr,
rmarkdown, testthat, covr, webshot, png, grid, limma, glue,
dplyr, tibble, tidyr
shiny (>= 1.1.0), canvasXpress.data, knitr, rmarkdown,
testthat, covr, webshot, png, grid, limma, glue, dplyr, tibble,
tidyr
shiny (>= 1.1.0), canvasXpress.data, dplyr, glue, grid,
knitr, png, readr, rmarkdown, testthat, tibble, tidyr, webshot,
limma
shiny (>= 1.1.0), canvasXpress.data, dplyr, glue, grid,
knitr, png, readr, rmarkdown, testthat, tibble, tidyr, limma
shiny (>= 1.1.0), canvasXpress.data, dplyr, glue, grid,
knitr, png, readr, rlang, rmarkdown, stringr, testthat, tibble,
tidyr, limma, ggplot2
testthat (>= 2.3.2), knitr (>= 1.29), rmarkdown
testthat (>= 2.3.2), knitr (>= 1.29), rmarkdown, parallel
alr3, leaps, lme4, lmtest, nlme, sandwich, mgcv, rgl
alr3, leaps, lme4, lmtest, nlme, sandwich, mgcv, rgl,
survival, survey
alr3, leaps, lme4, lmtest, nlme, sandwich, mgcv, pbkrtest,
rgl, survival, survey, boot
alr3, boot, leaps, lme4, lmtest, nlme, quantreg, sandwich,
mgcv, pbkrtest (>= 0.3-2), rgl, survival, survey
alr3, boot, leaps, lme4, lmtest, nlme, quantreg, sandwich,
mgcv, pbkrtest (>= 0.3-2), rgl (>= 0.93.960), survival, survey
alr3, leaps, lmtest, sandwich, mgcv, rgl
alr4, boot, leaps, lme4, lmtest, nlme, quantreg, sandwich,
mgcv, pbkrtest (>= 0.3-2), rgl (>= 0.93.960), survival, survey
alr4, boot, leaps, lme4, lmtest, Matrix, MatrixModels, mgcv,
nlme, pbkrtest (>= 0.3-2), quantreg, rgl (>= 0.93.960),
sandwich, SparseM, survival, survey
alr4, boot, leaps, lme4, lmtest, Matrix, MatrixModels, nlme,
rgl (>= 0.93.960), sandwich, SparseM, survival, survey
alr4, boot, coxme, leaps, lme4, lmtest, Matrix, MatrixModels,
nlme, rgl (>= 0.93.960), sandwich, SparseM, survival, survey
alr4, boot, coxme, leaps, lme4, lmtest, Matrix, MatrixModels,
nlme, rgl (>= 0.93.960), sandwich, SparseM, survival, survey,
nloptr
alr4, boot, coxme, leaps, lmtest, Matrix, MatrixModels, rgl
(>= 0.93.960), sandwich, SparseM, survival, survey
alr4, boot, coxme, knitr, leaps, lmtest, Matrix,
MatrixModels, rgl (>= 0.93.960), sandwich, SparseM, survival,
survey
alr4, boot, coxme, effects, knitr, leaps, lmtest, Matrix,
MatrixModels, rgl (>= 0.93.960), sandwich, SparseM, survival,
survey
alr4, boot, coxme, effects, knitr, leaps, lmtest, Matrix,
MatrixModels, rgl (>= 0.93.960), rio, sandwich, SparseM,
survival, survey
alr4, boot, coxme, effects, knitr, leaps, lmtest, Matrix,
MatrixModels, mvtnorm, rgl (>= 0.93.960), rio, sandwich,
SparseM, survival, survey
Matrix, testthat (>= 2.1.0), knitr, rmarkdown
kableExtra, plyr, stargazer, knitr, rmarkdown, covr, testthat
gbm, pls, gam, mlbench, rpart, ellipse, ipred, klaR, randomForest, gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost, earth, party, ada, affy, proxy, e1071, grid
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest, gpls, pamr,
kernlab, mda, mgcv, nnet, class, MASS, mboost, earth, party, ada, affy, proxy, e1071,
grid, elasticnet
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest, gpls, pamr,
kernlab, mda, mgcv, nnet, class, MASS, mboost, earth (>= 2.0-0), party, ada, affy, proxy, e1071,
grid, elasticnet, SDDA
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest, gpls, pamr,
kernlab, mda, mgcv, nnet, class, MASS, mboost, earth (>= 2.0-0), party, ada, affy, proxy, e1071,
grid, elasticnet, SDDA, caTools
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest, gpls, pamr,
kernlab, mda, mgcv, nnet, class, MASS, mboost, earth (>= 2.0-0), party, ada, affy, proxy, e1071,
grid, elasticnet, SDDA, caTools, RWeka, superpc
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest, gpls, pamr,
kernlab, mda, mgcv, nnet, class, MASS, mboost, earth (>= 2.0-0), party, ada, affy, proxy, e1071,
grid, elasticnet, SDDA, caTools, RWeka (>= 0.3-14), superpc, penalized, sparseLDA (>= 0.1-1)
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest, gpls, pamr,
kernlab, mda, mgcv, nnet, class, MASS, mboost, earth (>= 2.0-0), party, ada, affy, proxy, e1071,
grid, elasticnet, SDDA, caTools, RWeka (>= 0.3-14), superpc, penalized, sparseLDA (>= 0.1-1), spls, sda
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest, gpls, pamr,
kernlab, mda, mgcv, nnet, class, MASS, mboost, earth (>= 2.2-3), party, ada, affy, proxy, e1071,
grid, elasticnet, SDDA, caTools, RWeka (>= 0.3-14), superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.3-14), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.3-14), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.3-14), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.3-14), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.3-14), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov, gam
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.3-14), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach, GAMens
(>= 1.1.1)
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.3-14), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach, GAMens
(>= 1.1.1), rocc, foba
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.4-1), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach, GAMens
(>= 1.1.1), rocc, foba, partDSA
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.4-1), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.4-1), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda, fastICA
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.4-1), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda, fastICA, neuralnet,
quantregForest, rda
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.4-1), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda, fastICA, neuralnet,
quantregForest, rda, HDclassif
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.4-1), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda, fastICA, neuralnet,
quantregForest, rda, HDclassif, LogicReg, LogicForest
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.4-1), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda, fastICA, neuralnet,
quantregForest, rda, HDclassif, LogicReg, LogicForest, logicFS
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.4-1), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda, fastICA, neuralnet,
quantregForest, rda, HDclassif, LogicReg, LogicForest, logicFS,
RANN
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.4-1), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda, fastICA, neuralnet,
quantregForest, rda, HDclassif, LogicReg, LogicForest, logicFS,
RANN, qrnn, Boruta
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.4-1), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda, fastICA, neuralnet,
quantregForest, rda, HDclassif, LogicReg, LogicForest, logicFS,
RANN, qrnn, Boruta, Hmisc
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party, ada, affy, proxy, e1071, grid,
elasticnet, SDDA, caTools, RWeka (>= 0.4-1), superpc,
penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet, relaxo,
lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda, fastICA, neuralnet,
quantregForest, rda, HDclassif, LogicReg, LogicForest, logicFS,
RANN, qrnn, Boruta, Hmisc, Cubist
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet,
relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach,
GAMens (>= 1.1.1), rocc, foba, partDSA, hda, fastICA,
neuralnet, quantregForest, rda, HDclassif, LogicReg,
LogicForest, logicFS, RANN, qrnn, Boruta, Hmisc, Cubist
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet,
relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach,
GAMens (>= 1.1.1), rocc, foba, partDSA, hda, fastICA,
neuralnet, quantregForest, rda, HDclassif, LogicReg,
LogicForest, logicFS, RANN, qrnn, Boruta, Hmisc, Cubist, bst
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet,
relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, foreach,
GAMens (>= 1.1.1), rocc, foba, partDSA, hda, fastICA,
neuralnet, quantregForest, rda, HDclassif, LogicReg,
LogicForest, logicFS, RANN, qrnn, Boruta, Hmisc, Cubist, bst,
leaps
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet,
relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda, fastICA, neuralnet,
quantregForest, rda, HDclassif, LogicReg, LogicForest, logicFS,
RANN, qrnn, Boruta, Hmisc, Cubist, bst, leaps, doMC
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet,
relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda, fastICA, neuralnet,
quantregForest, rda, HDclassif, LogicReg, LogicForest, logicFS,
RANN, qrnn, Boruta, Hmisc, Cubist, bst, leaps
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet,
relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda, fastICA, neuralnet,
quantregForest, rda, HDclassif, LogicReg, LogicForest, logicFS,
RANN, qrnn, Boruta, Hmisc, Cubist, bst, leaps, obliqueRF
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet,
relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda, fastICA, neuralnet,
quantregForest, rda, HDclassif, LogicReg, LogicForest, logicFS,
RANN, qrnn, Boruta, Hmisc, Cubist, bst, leaps, obliqueRF, rrlda
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet,
relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr, GAMens
(>= 1.1.1), rocc, foba, partDSA, hda, fastICA, neuralnet,
quantregForest, rda, HDclassif, LogicReg, LogicForest, logicFS,
RANN, qrnn, Boruta, Hmisc, Cubist, bst, leaps, obliqueRF,
rrlda, evtree
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet (>=
1.7.1), relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr,
GAMens (>= 1.1.1), rocc, foba, partDSA, hda, fastICA,
neuralnet, quantregForest, rda, HDclassif, LogicReg,
LogicForest, logicFS, RANN, qrnn, Boruta, Hmisc, Cubist, bst,
leaps, obliqueRF, rrlda, evtree
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet (>=
1.7.1), relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr,
GAMens (>= 1.1.1), rocc, foba, partDSA, hda, fastICA,
neuralnet, quantregForest, rda, HDclassif, LogicReg,
LogicForest, logicFS, RANN, qrnn, Boruta, Hmisc, Cubist, bst,
leaps, obliqueRF, rrlda, evtree, penalizedLDA, rFerns
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet (>=
1.7.1), relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr,
GAMens (>= 1.1.1), rocc, foba, partDSA, hda, fastICA,
neuralnet, quantregForest, rda, HDclassif, LogicReg,
LogicForest, logicFS, RANN, qrnn, Boruta, Hmisc, Cubist, bst,
leaps, obliqueRF, rrlda, evtree, penalizedLDA, rFerns, pROC,
kohonen
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet (>=
1.7.1), relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr,
GAMens (>= 1.1.1), rocc, foba, partDSA, hda, fastICA,
neuralnet, quantregForest, rda, HDclassif, LogicReg,
LogicForest, logicFS, RANN, qrnn, Boruta, Hmisc, Cubist, bst,
leaps, obliqueRF, rrlda, evtree, penalizedLDA, rFerns, pROC,
kohonen, RSNNS
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet (>=
1.7.1), relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr,
GAMens (>= 1.1.1), rocc, foba, partDSA, hda, fastICA,
neuralnet, quantregForest, rda, HDclassif, LogicReg,
LogicForest, logicFS, RANN, qrnn, Boruta, Hmisc, Cubist, bst,
leaps, obliqueRF, rrlda, evtree, penalizedLDA, rFerns, pROC,
kohonen, RSNNS, RRF, KRLS
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet (>=
1.8), relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr,
GAMens (>= 1.1.1), rocc, foba, partDSA, hda, fastICA,
neuralnet, quantregForest, HDclassif, LogicReg, LogicForest,
logicFS, RANN, qrnn, Boruta, Hmisc, Cubist, bst, leaps,
obliqueRF, rrlda, evtree, penalizedLDA, rFerns, pROC, kohonen,
RSNNS, RRF, KRLS, C50
gbm, pls, mlbench, rpart, ellipse, ipred, klaR, randomForest,
gpls, pamr, kernlab, mda, mgcv, nnet, class, MASS, mboost,
earth (>= 2.2-3), party (>= 0.9-99992), ada, affy, proxy,
e1071, grid, elasticnet, SDDA, caTools, RWeka (>= 0.4-1),
superpc, penalized, sparseLDA (>= 0.1-1), spls, sda, glmnet (>=
1.8), relaxo, lars, vbmp, nodeHarvest, rrcov, gam, stepPlr,
GAMens (>= 1.1.1), rocc, foba, partDSA, hda, fastICA,
neuralnet, quantregForest, HDclassif, LogicReg, LogicForest,
logicFS, RANN, qrnn, Boruta, Hmisc, Cubist, bst, leaps,
obliqueRF, rrlda, evtree, penalizedLDA, rFerns, pROC, kohonen,
RSNNS, RRF, KRLS, C50, arm
ada, affy, arm, Boruta, bst, C50, caTools, class, Cubist,
e1071, earth (>= 2.2-3), elasticnet, ellipse, evtree, fastICA,
foba, gam, GAMens (>= 1.1.1), gbm (>= 2.0-9), glmnet (>= 1.8),
gpls, grid, hda, HDclassif, Hmisc, ipred, kernlab, klaR,
kohonen, KRLS, lars, leaps, LogicForest, logicFS, LogicReg,
MASS, mboost, mda, mgcv, mlbench, neuralnet, nnet, nodeHarvest,
obliqueRF, pamr, partDSA, party (>= 0.9-99992), penalized,
penalizedLDA, pls, pROC, proxy, qrnn, quantregForest,
randomForest, RANN, relaxo, rFerns, rocc, rpart, rrcov, RRF,
rrlda, RSNNS, RWeka (>= 0.4-1), sda, SDDA, sparseLDA (>=
0.1-1), spls, stepPlr, superpc, vbmp
ada, affy, arm, Boruta, bst, C50, car, caTools, class,
Cubist, e1071, earth (>= 2.2-3), elasticnet, ellipse, evtree,
extraTrees, fastICA, foba, gam, GAMens (>= 1.1.1), gbm (>=
2.1), glmnet (>= 1.8), gpls, grid, hda, HDclassif, HiDimDA,
Hmisc, ipred, kernlab, kknn, klaR, kohonen, KRLS, lars, leaps,
LogicForest, logicFS, LogicReg, MASS, mboost, mda, mgcv,
mlbench, neuralnet, nnet, nodeHarvest, obliqueRF, pamr,
partDSA, party (>= 0.9-99992), penalized, penalizedLDA, pls,
pROC, proxy, qrnn, quantregForest, randomForest, RANN, relaxo,
rFerns, rocc, rpart, rrcov, RRF, rrlda, RSNNS, RWeka (>=
0.4-1), sda, SDDA, sparseLDA (>= 0.1-1), spls, stepPlr,
superpc, vbmp
ada, affy, arm, Boruta, bst, C50, car, caTools, class,
Cubist, e1071, earth (>= 2.2-3), elasticnet, ellipse, evtree,
extraTrees, fastICA, foba, gam, gbm (>= 2.1), glmnet (>= 1.8),
gpls, grid, hda, HDclassif, HiDimDA, Hmisc, ipred, kernlab,
kknn, klaR, kohonen, KRLS, lars, leaps, LogicForest, logicFS,
LogicReg, MASS, mboost, mda, mgcv, mlbench, neuralnet, nnet,
nodeHarvest, obliqueRF, pamr, partDSA, party (>= 0.9-99992),
penalized, penalizedLDA, pls, pROC, protoclass, proxy, qrnn,
quantregForest, randomForest, RANN, relaxo, rFerns, rocc,
rpart, rrcov, RRF, rrlda, RSNNS, RWeka (>= 0.4-1), sda, SDDA,
sparseLDA (>= 0.1-1), spls, stepPlr, superpc, vbmp
e1071, earth (>= 2.2-3), ellipse, fastICA, gam, ipred,
kernlab, klaR, MASS, mda, mgcv, mlbench, nnet, party (>=
0.9-99992), pls, pROC, proxy, randomForest, RANN, spls, affy
e1071, earth (>= 2.2-3), fastICA, gam, ipred, kernlab, klaR,
MASS, ellipse, mda, mgcv, mlbench, nnet, party (>= 0.9-99992),
pls, pROC, proxy, randomForest, RANN, spls
e1071, earth (>= 2.2-3), fastICA, gam, ipred, kernlab, klaR,
MASS, ellipse, mda, mgcv, mlbench, nnet, party (>= 0.9-99992),
pls, pROC, proxy, randomForest, RANN, spls, subselect, pamr,
superpc, Cubist, testthat
e1071, earth (>= 2.2-3), fastICA, gam, ipred, kernlab, klaR,
MASS, ellipse, mda, mgcv, mlbench, nnet, party (>= 0.9-99992),
pls, pROC, proxy, randomForest, RANN, spls, subselect, pamr,
superpc, Cubist, testthat (>= 0.9.1)
e1071, earth (>= 2.2-3), fastICA, gam, ipred, kernlab, klaR,
MASS, ellipse, mda, mgcv, mlbench, nnet, party (>= 0.9-99992),
pls, pROC (>= 1.8), proxy, randomForest, RANN, spls, subselect,
pamr, superpc, Cubist, testthat (>= 0.9.1)
BradleyTerry2, e1071, earth (>= 2.2-3), fastICA, gam, ipred,
kernlab, klaR, MASS, ellipse, mda, mgcv, mlbench, nnet, party
(>= 0.9-99992), pls, pROC (>= 1.8), proxy, randomForest, RANN,
spls, subselect, pamr, superpc, Cubist, testthat (>= 0.9.1),
rPython
BradleyTerry2, e1071, earth (>= 2.2-3), fastICA, gam, ipred,
kernlab, klaR, MASS, ellipse, mda, mgcv, mlbench, nnet, party
(>= 0.9-99992), pls, pROC (>= 1.8), proxy, randomForest, RANN,
spls, subselect, pamr, superpc, Cubist, testthat (>= 0.9.1)
BradleyTerry2, e1071, earth (>= 2.2-3), fastICA, gam, ipred,
kernlab, klaR, MASS, ellipse, mda, mgcv, mlbench, MLmetrics,
nnet, party (>= 0.9-99992), pls, pROC (>= 1.8), proxy,
randomForest, RANN, spls, subselect, pamr, superpc, Cubist,
testthat (>= 0.9.1)
BradleyTerry2, e1071, earth (>= 2.2-3), fastICA, gam, ipred,
kernlab, klaR, MASS, ellipse, mda, mgcv, mlbench, MLmetrics,
nnet, party (>= 0.9-99992), pls, pROC, proxy, randomForest,
RANN, spls, subselect, pamr, superpc, Cubist, testthat (>=
0.9.1)
BradleyTerry2, e1071, earth (>= 2.2-3), fastICA, gam (>=
1.15), ipred, kernlab, knitr, klaR, MASS, ellipse, mda, mgcv,
mlbench, MLmetrics, nnet, party (>= 0.9-99992), pls, pROC,
proxy, randomForest, RANN, spls, subselect, pamr, superpc,
Cubist, testthat (>= 0.9.1)
BradleyTerry2, e1071, earth (>= 2.2-3), fastICA, gam (>=
1.15), ipred, kernlab, knitr, klaR, MASS, ellipse, mda, mgcv,
mlbench, MLmetrics, nnet, party (>= 0.9-99992), pls, pROC,
proxy, randomForest, RANN, spls, subselect, pamr, superpc,
Cubist, testthat (>= 0.9.1), rpart, dplyr
BradleyTerry2, e1071, earth (>= 2.2-3), fastICA, gam (>=
1.15), ipred, kernlab, knitr, klaR, MASS, ellipse, mda, mgcv,
mlbench, MLmetrics, nnet, party (>= 0.9-99992), pls, proxy,
randomForest, RANN, spls, subselect, pamr, superpc, Cubist,
testthat (>= 0.9.1), rpart, dplyr
BradleyTerry2, e1071, earth (>= 2.2-3), fastICA, gam (>=
1.15), ipred, kernlab, knitr, klaR, MASS, ellipse, mda, mgcv,
mlbench, MLmetrics, nnet, party (>= 0.9-99992), pls, proxy,
randomForest, RANN, spls, subselect, pamr, superpc, Cubist,
testthat (>= 0.9.1), rpart, dplyr, covr
BradleyTerry2, e1071, earth (>= 2.2-3), fastICA, gam (>=
1.15), ipred, kernlab, knitr, klaR, MASS, ellipse, Matrix, mda,
mgcv, mlbench, MLmetrics, nnet, party (>= 0.9-99992), pls,
proxy, randomForest, RANN, rmarkdown, spls, subselect, pamr,
superpc, Cubist, testthat (>= 0.9.1), rpart, dplyr, covr
BradleyTerry2, covr, Cubist, dplyr, earth (>= 2.2-3),
ellipse, fastICA, gam (>= 1.15), ipred, kernlab, klaR, knitr,
MASS, Matrix, mda, mgcv, mlbench, MLmetrics, nnet, pamr, party
(>= 0.9-99992), pls, proxy, randomForest, RANN, rmarkdown,
rpart, spls, subselect, superpc, testthat (>= 0.9.1), themis
(>= 0.1.3)
testthat, randomForest, rpart, kernlab, nnet, e1071, ipred,
pROC, knitr, mlbench, MASS, gbm, klaR
caTools, testthat, lintr, randomForest, glmnet, rpart,
kernlab, nnet, e1071, ipred, pROC, knitr, mlbench, MASS, gbm,
klaR
caTools, testthat, lintr, randomForest, glmnet, rpart,
kernlab, nnet, e1071, ipred, pROC, knitr, mlbench, MASS, gbm,
klaR, rmarkdown
rgeos, OpenStreetMap, raster, rgdal, knitr
rgeos, rosm, raster, rgdal, knitr, rmarkdown
SpatialPosition, knitr, rmarkdown, rgdal, testthat
SpatialPosition, knitr, rmarkdown, rgdal, tinytest
lwgeom, SpatialPosition, knitr, rmarkdown, rgdal, tinytest
lwgeom, SpatialPosition, knitr, rmarkdown, rgdal, tinytest,
covr
dse, expsmooth, fBasics, fUtilities, FitARMA, fGarch,
polynom, TSA, xtable
dse, e1071, expsmooth, fBasics, FitARMA, fGarch, polynom,
TSA, xtable
dse, expsmooth, fBasics, FitARMA, fGarch, forecast, polynom,
timeSeries, TSA, xtable
dse, expsmooth, fBasics, FitARMA, fGarch, forecast, polynom,
timeSeries, xtable
dse, expsmooth, fBasics, fGarch, forecast, polynom,
timeSeries, xtable
eha, knitr, rmarkdown, splines, testthat
colorspace, eha, glmnet, knitr, progress, rmarkdown, splines,
testthat (>= 3.0.0), visreg
colorspace, covr, eha, glmnet, knitr, progress, rmarkdown,
splines, testthat (>= 3.0.0), visreg
eha, gbm, glmnet, knitr, rmarkdown, splines, colorspace,
visreg, testthat
knitr, rmarkdown, covr, testthat, broom, janitor
rmarkdown, knitr, mgcv, GGally, tidyr, testthat (>= 3.0.0),
covr
knitr, rmarkdown, pacman, testthat, magrittr
knitr, rmarkdown, pacman, testthat, magrittr, igraph
caret, randomForest, knitr, rmarkdown, pacman, testthat,
magrittr, igraph
caret, randomForest, knitr, rmarkdown, pacman, testthat,
magrittr, dplyr
DBI, knitr, pkgdown, rmarkdown, roxygen2, tinytest
DBI, knitr, rmarkdown, roxygen2, tinytest
testthat, beepr, crayon, covr, knitr, rmarkdown, spelling
rms, qvcalc, glmmML, nnet, pscl, VGAM, gee, mlogit, Ecdat,
geepack, mgcv, rpart, party, ordinal, lme4, vcdExtra, glmnet,
mboost, class, e1071, flexmix, lqa, lpSolve, GAMBoost,
penalized
rms, qvcalc, glmmML, nnet, pscl, VGAM, gee, mlogit, Ecdat,
geepack, mgcv, rpart, party, ordinal, lme4, vcdExtra, glmnet,
mboost, class, e1071, flexmix, lpSolve, GAMBoost, penalized
lattice, vegan, FD, spacodiR, entropart, fBasics, picante
lattice, spacodiR, entropart, fBasics, picante, knitr
lattice, spacodiR, entropart, fBasics, picante, mice, knitr
lattice, entropart, fBasics, picante, mice, knitr
testthat, viridis, lubridate, tidyverse, knitr, rmarkdown
covr, dplyr, knitr, nycflights13, ranger, rmarkdown,
testthat, tibble
covr, knitr, nycflights13, ranger, rmarkdown, testthat,
tibble
covr, knitr, lintr, nycflights13, ranger, rmarkdown,
roxygen2, testthat
knitr, covr, testthat (>= 3.0.0), rmarkdown
knitr, rmarkdown, bookdown, tidyverse, ggalt, cobalt, ggsci,
modEvA, naniar, DT, Hmisc, hrbrthemes, summarytools, kableExtra
CBPS, data.table (>= 1.12.8), rstan (>= 2.19.3), Rmosek,
testthat (>= 2.1.0), knitr, rmarkdown
BayesTree, dplyr, foreign, Hmisc, knitr, MASS, nnet,
reshape2, rmarkdown, sas7bdat, testthat, tidyr
knitr, rmarkdown, dplyr, shiny, testthat (>= 2.1.0)
roxygen2 (>= 5.0.1), testthat, covr, knitr
rmarkdown, parallel, testthat (>= 2.1.0)
rgl, grid, ggplot2, gridExtra, testthat, knitr
dielectric, rgl, ggplot2, gridExtra, testthat
dielectric, RcppFaddeeva, plyr, rgl, grid, ggplot2,
gridExtra, testthat, knitr, scales
DBI, RSQLite, testthat, knitr, rmarkdown
DBI, RSQLite, testthat, knitr, rmarkdown, data.table (>=
1.11.4), reshape2
DBI, RSQLite, testthat, knitr, rmarkdown, rqdatatable (>=
0.1.3), data.table (>= 1.11.4), reshape2
DBI, RSQLite, testthat, knitr, rmarkdown, data.table (>=
1.11.4), rqdatatable (>= 0.1.4), reshape2
DBI, RSQLite, testthat, knitr, rmarkdown, data.table (>=
1.11.4), rqdatatable (>= 1.1.1)
DBI, RSQLite, testthat, knitr, rmarkdown, data.table (>=
1.11.4), rqdatatable (>= 1.1.2)
DBI, RSQLite, testthat, knitr, rqdatatable (>= 1.1.2), RUnit
DBI, RSQLite, knitr, rqdatatable (>= 1.1.4), RUnit
rqdatatable (>= 1.1.5), DBI, RSQLite, knitr, RUnit
DBI, RSQLite, knitr, rmarkdown, RUnit, yaml
DBI, RSQLite, knitr, rmarkdown, yaml, tinytest
knitr, robustHD, robustbase, rrcov, MASS
knitr, robustHD, robustbase, rrcov, MASS, svd, ellipse
knitr, robustHD, MASS, ellipse, markdown
knitr, robustHD, MASS, ellipse, markdown, rospca
knitr, robustHD, MASS, ellipse, markdown, rospca, GSE
testthat (>= 3.0.0), knitr, rmarkdown, Seurat, DESeq2,
RcppAnnoy, tibble, SeuratObject
covr, testthat (>= 1.0.0), knitr, rmarkdown
pracma, scatterplot3d, fractaldim, testthat, wordspace,
knitr, rmarkdown, uwot, dendextend, ggplot2, ggbeeswarm,
gridExtra
scatterplot3d, fractaldim, testthat, wordspace, knitr,
rmarkdown, uwot, dendextend, ggplot2, ggbeeswarm, gridExtra,
mvtnorm
devtools, usethis, testthat, covr, dplyr, dbplyr, ggplot2,
knitr, rmarkdown, chilemapas
testthat, covr, knitr, dplyr, dbplyr, chilemapas
testthat, covr, knitr, dplyr, dbplyr, ggplot2, chilemapas
coin, covr, flexsurv (>= 2.2), glmnet (>= 4.1), ipred,
partykit, pec, rmarkdown, rpart, testthat (>= 3.0.0)
knitr, rmarkdown, ggplot2, proto, RgoogleMaps, png, rjson,
mapproj, jpeg, geosphere, bitops
covr, knitr, parallel, rmarkdown, sf, testthat
randomForest, ggiraph, e1071, testthat, rpart
crayon (>= 1.3.4), curl, DBI, ggplot2, ggrepel, qs (>=
0.25.1), rmarkdown, RSQLite, stats, testthat, usethis (>=
1.6.0)
crayon (>= 1.3.4), curl, DBI, ggplot2, ggrepel, qs (>=
0.25.1), rmarkdown, RSQLite, stats, stringi, testthat, usethis
(>= 1.6.0), xgboost (>= 1.1)
knitr, lifecycle, rmarkdown, testthat (>= 3.0.0), usethis
bibtex (>= 0.5.0), knitr, lifecycle, rmarkdown, testthat (>=
3.0.0), usethis
covr, dagitty, igraph, mockery, testthat (>= 3.0.0)
stats, MASS, graphics, grDevices, utils, SemiPar
tcltk, tkrplot, parallel, GLAD, graphics, grDevices
ape, rgdal, tidyverse, rmarkdown, testthat, tinytex, knitr,
picante, wallace, R.utils, tools, dismo
knitr, rmarkdown, testthat, lax, covr, MASS, pscl
roxygen2 (>= 6.0.1), testthat, knitr, rmarkdown
roxygen2 (>= 6.0.1), testthat, knitr, rmarkdown, iptools,
stringi
roxygen2 (>= 6.1.0), testthat, knitr, rmarkdown, iptools,
stringi
testthat, knitr, rmarkdown, iptools, stringi
testthat, knitr, rmarkdown, ipaddress, stringi
knitr, rmarkdown, testthat, devtools, shiny, DT, ggplot2,
tidygraph, ggraph, grid
ggplot2, microbenchmark, knitr, data.table, dplyr
data.table, dplyr, ggplot2, knitr, microbenchmark, testthat
data.table, devtools, dplyr, ggplot2, knitr, rmarkdown,
magrittr, microbenchmark, testthat
data.table, devtools, dplyr, ggplot2, knitr, rmarkdown,
magrittr, microbenchmark, testthat (>= 0.11.0)
data.table, devtools, ggplot2, knitr, rmarkdown, magrittr,
microbenchmark, testthat (>= 0.11.0), tibble
data.table (>= 1.9.8), devtools, ggplot2, knitr, rmarkdown,
magrittr, microbenchmark, testthat (>= 0.11.0), tibble
R6, bit, data.table (>= 1.9.8), devtools, ggplot2, knitr,
magrittr, microbenchmark, rmarkdown, testthat (>= 0.11.0),
tibble
R6, bit, fastmatch, data.table (>= 1.9.8), devtools, ggplot2,
knitr, magrittr, microbenchmark, rmarkdown, testthat (>=
0.11.0), tibble
R6, fastmatch, data.table (>= 1.9.8), devtools, ggplot2,
knitr, magrittr, microbenchmark, rmarkdown, testthat (>=
0.11.0), tinytest (>= 1.1.0), tibble
R6, fastmatch, data.table (>= 1.9.8), devtools, ggplot2,
knitr, magrittr, microbenchmark, rmarkdown, testthat (>=
3.0.4), tinytest (>= 1.1.0), tibble
knitr, rmarkdown, testthat(>= 0.9), MASS, covr
knitr, rmarkdown, testthat(>= 0.9), MASS
knitr, rmarkdown, testthat(>= 0.9), MASS, darts
knitr, rmarkdown, testthat(>= 0.9), MASS, darts, mockery, cli
knitr, rmarkdown, testthat(>= 0.9), MASS, darts, mockery
pkgcache, knitr, rmarkdown, testthat, darts
assertthat, checkmate, covr, magrittr, dplyr, testthat,
knitr, rmarkdown
assertthat, checkmate, covr, datasets, magrittr, dplyr,
testthat, knitr, rmarkdown
assertthat, checkmate, covr, datasets, magrittr, hms, dplyr,
units, testthat, knitr, rmarkdown
gbm, lightgbm, randomForest, ranger, xgboost, tourr, lqmm,
mvtnorm, gganimate, dplyr, tidyr, tictoc, beepr, knitr,
testthat (>= 3.0.0), spelling, rmarkdown
rmarkdown (>= 1.10), tidyverse (>= 1.2.1)
MASS, knitr, testthat, investr, covr, rmarkdown
knitr, rmarkdown, testthat, vdiffr (>= 0.3.0)
covr, graphics, knitr, png, rmarkdown, rsvg, testthat
covr, graphics, knitr, png, rmarkdown, testthat
knitr, rmarkdown, ggplot2, testthat (>= 3.0.0), covr, chess
knitr, rmarkdown, testthat, GenomicInteractions, Gviz
knitr, rmarkdown, testthat, GenomicInteractions, Gviz,
countreg
testthat, GenomicInteractions, GenomicRanges, Gviz, countreg
drc, knitr, markdown, MBmca (>= 0.0.3-4), qpcR, xtable
drc, knitr, markdown, MBmca (>= 0.0.3-4), qpcR, RDML, xtable
drc, knitr, markdown, qpcR, RDML, rmarkdown, spelling,
testthat, tinytex, xtable
knitr, markdown, rmarkdown, testthat (>= 2.1.0), vcr (>= 0.5)
climatrends, knitr, markdown, rmarkdown, testthat (>= 2.1.0),
vcr (>= 0.5)
covr, knitr, microbenchmark, rmarkdown, testthat
covr, knitr, rmarkdown, testthat (>= 3.0.0), withr
testthat, zipcode, knitr, choroplethrMaps, choroplethrAdmin1
testthat, knitr, choroplethrMaps, choroplethrAdmin1 (>=
1.1.0)
testthat, choroplethrMaps, choroplethrAdmin1 (>= 1.1.0)
knitr, rmarkdown, spelling, testthat (>= 3.0.0), VPdtw
knitr, rmarkdown, spelling, testthat (>= 3.0.0), vdiffr,
VPdtw
bookdown, devtools, flexdashboard, pagedown, rolldown, tufte,
xaringan
bookdown, devtools, flexdashboard, pagedown, rolldown,
rticles, tufte, xaringan
knitr, lubridate, purrr, rmarkdown, testthat (>= 3.1.4),
tidyr
readxl, testthat, knitr, rmarkdown, covr, vdiffr
readxl, testthat (>= 3.0.0), knitr, rmarkdown, covr, vdiffr
broom, here, knitr, rmarkdown, SPREDA, tidyverse
covr, knitr, rmarkdown, rgl, matrixStats
fields, ggplot2, ggpubr, knitr, rmarkdown, papayar, rgl,
testthat (>= 2.1.0), covr
covr, ggplot2, ggpubr, grid, gridExtra, htmlwidgets,
manipulateWidget, knitr, rmarkdown, png, testthat (>= 3.0.0)
covr, ggplot2, ggpubr, htmlwidgets, knitr, rmarkdown,
papayar, testthat (>= 2.1.0)
covr, ggplot2, ggpubr, grid, gridExtra, htmlwidgets, knitr,
rmarkdown, papayar, png, testthat (>= 3.0.0)
testthat (>= 3.0.0), nlme, knitr, rmarkdown
clipr, covr, gert, gh, knitr, openssl, purrr, rmarkdown,
testthat (>= 3.0.0), usethis (>= 2.0.0), utils, vcr, withr
knitr, dendextend (>= 1.0.1), ComplexHeatmap (>= 1.13.2),
gridBase
knitr, dendextend (>= 1.0.1), ComplexHeatmap (>= 1.13.2),
gridBase, png
knitr, dendextend (>= 1.0.1), ComplexHeatmap (>= 2.0.0),
gridBase, png
knitr, dendextend (>= 1.0.1), ComplexHeatmap (>= 2.0.0),
gridBase, png, markdown
knitr, dendextend (>= 1.0.1), ComplexHeatmap (>= 2.0.0),
gridBase, png, markdown, bezier
knitr, dendextend (>= 1.0.1), ComplexHeatmap (>= 2.0.0),
gridBase, png, markdown, bezier, covr, rmarkdown
knitr, dendextend (>= 1.0.1), ComplexHeatmap (>= 1.99.0),
gridBase, png
covr (>= 3.5.0), ggrepel, kableExtra (>= 1.1.0), knitr (>=
1.28), RColorBrewer, rmarkdown (>= 2.1), roxygen2 (>= 7.1.0),
testthat (>= 3.0.0), vdiffr
rmarkdown, knitr, testthat, plotly, ggraph, igraph, stats,
ggplot2
knitr, rmarkdown, DBItest, mockery, R.utils
knitr, rmarkdown, DBItest, mockery, R.utils, rstudioapi, yaml
knitr, rmarkdown, mockery, R.utils, rstudioapi, yaml
feather, ggplot2, knitr, rmarkdown, roxygen2, mockery,
R.utils, rstudioapi, testthat, yaml
data.table, dplyr, glmnet, lintr, MASS, magrittr, mgcv,
microbenchmark, mlbench, randomForest, RANN, slam, testthat,
xgboost
knitr, sf, readxl, testthat, xml2, lazyeval
knitr, rmarkdown, sf, readxl, testthat, xml2, lazyeval
Biobase, annotate, GO.db, moe430a.db, RankAggreg, kohonen,
mclust
Biobase, BiocManager, annotate, GO.db, moe430a.db,
RankAggreg, kohonen, mclust
spData (>= 0.2.6.2), units, knitr, rmarkdown
knitr, reshape2, svd, rpart.plot, nnet, robCompositions
testthat, covr, knitr, rmarkdown, stringi
reticulate, rJava, tokenizers, RCurl, knitr, rmarkdown,
testthat
RUnit, knitr, rmarkdown, testthat, devtools, usethis
devtools, knitr, rmarkdown, RUnit, testthat, usethis
devtools, rasciidoc, rmarkdown, RUnit, testthat, usethis
covr, fansi, mockery, testthat, webshot, withr
callr, covr, htmlwidgets, knitr, mockery, rmarkdown,
rstudioapi, prettycode, testthat, withr
callr, covr, htmlwidgets, knitr, mockery, rmarkdown,
rstudioapi, prettycode (>= 1.1.0), testthat, withr
callr, covr, htmlwidgets, knitr, mockery, ps (>= 1.3.4.9000),
rmarkdown, rstudioapi, prettycode (>= 1.1.0), testthat, withr
callr, covr, grDevices, htmlwidgets, knitr, mockery, ps (>=
1.3.4.9000), rmarkdown, rstudioapi, prettycode (>= 1.1.0),
testthat, withr
callr, covr, grDevices, htmlwidgets, knitr, methods, mockery,
ps (>= 1.3.4.9000), rmarkdown, rstudioapi, prettycode (>=
1.1.0), testthat, tibble, withr
callr, covr, grDevices, htmlwidgets, knitr, methods, mockery,
prettycode (>= 1.1.0), processx, ps (>= 1.3.4.9000), rlang,
rmarkdown, rstudioapi, shiny, testthat, tibble, withr
asciicast, callr, covr, grDevices, htmltools, htmlwidgets,
knitr, methods, mockery, processx, ps (>= 1.3.4.9000), rlang,
rmarkdown, rstudioapi, shiny, testthat, tibble, whoami, withr
asciicast, callr, covr, digest, grDevices, htmltools,
htmlwidgets, knitr, methods, mockery, processx, ps (>=
1.3.4.9000), rlang, rmarkdown, rstudioapi, shiny, testthat,
tibble, whoami, withr
callr, covr, digest, glue (>= 1.6.0), grDevices, htmltools,
htmlwidgets, knitr, methods, mockery, processx, ps (>=
1.3.4.9000), rlang (>= 1.0.2.9003), rmarkdown, rprojroot,
rstudioapi, testthat, tibble, whoami, withr
knitr, rmarkdown, spelling, testthat (>= 3.0.0), tidyverse
knitr, rmarkdown, ggmap (>= 2.6), pander
knitr, rmarkdown, ggmap (>= 2.6), pander, testthat
spelling, knitr, rmarkdown, ggmap (>= 2.6), pander, testthat
spelling, knitr, rmarkdown, pander, testthat
testthat, knitr, rmarkdown, dplyr, tidyr, maps
rangeBuilder, rmarkdown, knitr, testthat (>= 3.0.0), covr
fields, gstat, mapdata, maps, ncdf4, raster, RODBC, sp
ClimMobTools, knitr, raster, rmarkdown, testthat
chirps, knitr, nasapower, rmarkdown, sf, testthat
knitr, MODISTools, nasapower, rmarkdown, testthat
knitr, MODISTools, nasapower, rmarkdown, sf, testthat
survival (>= 2.38-1), ranger, knitr, rmarkdown, testthat,
dplyr
countrycode, inTextSummaryTable (>= 2.19.0), pander,
patientProfilesVis (>= 0.12.0), reshape2, testthat, xml2, DT
countrycode, inTextSummaryTable (>= 3.1.0), pander,
patientProfilesVis (>= 0.12.0), reshape2, testthat, xml2, DT
countrycode, inTextSummaryTable (>= 3.1.0),
patientProfilesVis (>= 0.12.0), testthat, DT
dplyr, ggplot2, plotly, htmltools, jsonlite, pander,
rmarkdown, testthat, xml2, flextable
dplyr, tibble, ggplot2, plotly, htmltools, pander, rmarkdown,
testthat, flextable
tibble, ggplot2, plotly, htmltools, pander, rmarkdown,
testthat, flextable
knitr, rmarkdown, testthat (>= 3.0.0), tidyverse, vdiffr
covr, rstudioapi (>= 0.5), testthat (>= 2.0.0)
covr, knitr, rmarkdown, rstudioapi (>= 0.5), testthat (>=
2.0.0)
covr, knitr, magrittr, pillar, rmarkdown, testthat (>=
3.0.0), withr
tensorflow (>= 1.4.2), keras (>= 2.1.2), knitr, testthat
httptest, kableExtra, knitr, lintr, rmarkdown, testthat
rstudioapi, testthat (>= 3.0.0), mockery
Formula, knitr, car, metafor, robumeta, nlme, mlmRev, AER,
plm, testthat, rmarkdown
Formula, knitr, car, geepack, metafor, robumeta, nlme,
mlmRev, AER, plm, testthat, rmarkdown
Formula, knitr, car, geepack, metafor, robumeta, nlme,
mlmRev, AER, plm (>= 1.6-4), testthat, rmarkdown
Formula, knitr, carData, geepack, metafor, robumeta, nlme,
mlmRev, AER, plm (>= 1.6-4), testthat, rmarkdown
Formula, knitr, carData, geepack, metafor, robumeta, nlme,
mlmRev, AER, plm (>= 1.6-4), lme4, zoo, testthat, rmarkdown
Formula, knitr, carData, geepack, metafor, robumeta, nlme,
mlmRev, AER, plm (>= 1.6-4), Matrix, lme4, zoo, testthat,
rmarkdown
Formula, knitr, carData, geepack, metafor, robumeta, nlme,
mlmRev, AER, plm (>= 1.6-4), Matrix, lme4, zoo, testthat,
rmarkdown, covr
Formula, knitr, carData, geepack, metafor, metadat, robumeta,
nlme, mlmRev, AER, plm (>= 1.6-4), Matrix, lme4, zoo, testthat,
rmarkdown, covr
Formula, knitr, carData, geepack, metafor, metadat, robumeta,
nlme, mlmRev, AER, plm (>= 1.6-4), Matrix, lme4, zoo, testthat,
rmarkdown, covr, ivreg
e1071, lpSolve (>= 5.5.7), quadprog (>= 1.4-8), relations
e1071, lpSolve (>= 5.5.7), quadprog (>= 1.4-8), relations,
cluster
e1071, lpSolve (>= 5.5.2), quadprog (>= 1.4-8),
flexmix, flexclust, kernlab
testthat, condSURV, plotly, knitr, rmarkdown
MASS (<= 7.3-53), geepack (>= 1.2), nloptr (>= 1.2.2.2),
optimx (>= 2020-4.2), doParallel (>= 1.0.15), shinyBS (>=
0.61), tidyverse (>= 1.1.1), DT (>= 0.2), stringr (>= 1.2.0),
CRTSize, data.table, testthat (>= 3.0.0), knitr, rmarkdown,
shinycssloaders
testthat, rprojroot, knitr, rmarkdown, covr
covr, roxygen2, testthat (>= 2.1.0), knitr, rmarkdown
covr, knitr, prettydoc, rmarkdown, roxygen2, testthat (>=
2.1.0)
dplyr, knitr, parallel, roxygen2 (>= 5.0.0), testthat, tools
dplyr, foreach, iterators, knitr, parallel, roxygen2 (>=
5.0.0), testthat, tools
devtools, dplyr, foreach, iterators, knitr, parallel,
roxygen2 (>= 5.0.0), testthat, tools
callr, devtools, dplyr, foreach, iterators, knitr, parallel,
rmarkdown, roxygen2 (>= 5.0.0), testthat, tools
knitr, rmarkdown, testthat, mclust, gplots, ggplot2
testthat, knitr, rmarkdown, SingleCellExperiment, Seurat,
covr
testthat, knitr, rmarkdown, SingleCellExperiment, Seurat,
covr, SummarizedExperiment
testthat, knitr, rmarkdown, SingleCellExperiment, Seurat,
covr, SummarizedExperiment, pkgdown, spelling
testthat, knitr, rmarkdown, SingleCellExperiment, Seurat (>=
2.3.0), covr, SummarizedExperiment, pkgdown, spelling
testthat (>= 2.1.0), knitr, rmarkdown, SingleCellExperiment,
Seurat (>= 2.3.0), covr, SummarizedExperiment, pkgdown,
spelling
MASS, parallel, doParallel, knitr (>= 1.12), rmarkdown (>=
0.9)
knitr, rmarkdown, codetools, testthat (>= 3.0.0), R.rsp
knitr, rmarkdown, markdown, testthat, DT, magick, rgl, covr,
gridExtra, cowplot
Matrix, rsparse, recommenderlab (>= 0.2-7), MASS
Matrix, MatrixExtra, RhpcBLASctl, recosystem, recommenderlab
(>= 0.2-7), MASS, knitr, rmarkdown, kableExtra
Matrix, MatrixExtra, RhpcBLASctl, recosystem (>= 0.5),
recommenderlab (>= 0.2-7), MASS, knitr, rmarkdown, kableExtra
knitr, scales, cancensus, ggplot2, tidyr, rmarkdown, sf
purrr, tidyverse, ggpubr, knitr, rmarkdown
cmsaf, cmsafvis, spelling (>= 2.1), testthat (>= 2.3)
plotKML (>= 0.6), rgdal (>= 1.4), rnaturalearth (>= 0.1),
spelling (>= 2.1), testthat (>= 2.3)
plotKML (>= 0.6), rnaturalearth (>= 0.1), spelling (>= 2.1),
testthat (>= 2.3)
plotKML (>= 0.8), rnaturalearth (>= 0.1), spelling (>= 2.1),
testthat (>= 2.3)
rnaturalearth (>= 0.1), spelling (>= 2.1), testthat (>= 2.3)
dplyr, knitr, lintr, purrr, rmarkdown, spelling, testthat,
tidyr, vdiffr
knitr, lintr, purrr, rmarkdown, spelling, testthat, tidyr,
vdiffr
knitr, lintr, rmarkdown, spelling, testthat, tidyr, vdiffr
censReg, AER, knitr, rmarkdown, maxLik, bookdown
censReg, AER, knitr, rmarkdown, maxLik, bookdown, tobit1
testthat, knitr, rmarkdown, Rtsne, scatterplot3d
abc (>= 2.0), knitr, rmarkdown, testthat (>= 0.10.0)
abc (>= 2.0), knitr, rmarkdown, testthat (>= 0.11.0)
abc (>= 2.0), knitr, PopGenome (>= 2.1.0), phyclust (>=
0.1-16), rmarkdown, testthat (>= 0.11.0)
abc (>= 2.0), knitr, phyclust (>= 0.1-16), rmarkdown,
testthat (>= 0.11.0)
testthat, covr, knitr, rmarkdown, pkgdown
ggplot2, testthat, covr, knitr, rmarkdown
MatchIt, twang, Matching, CBPS, knitr, rmarkdown
MatchIt, twang, Matching, CBPS, ebal, knitr, rmarkdown
MatchIt, twang, Matching, optmatch, CBPS, ebal, mice, knitr,
rmarkdown
MatchIt, twang, Matching, optmatch, CBPS, WeightIt, ebal,
mice, knitr, rmarkdown
MatchIt, twang, Matching, optmatch, CBPS, WeightIt (>=
0.3.0), ebal, mice, knitr, rmarkdown
MatchIt, twang, Matching, optmatch, ebal, mice, knitr,
rmarkdown
MatchIt, WeightIt (>= 0.3.0), twang, Matching, optmatch,
ebal, CBPS (>= 0.17), mice, knitr, rmarkdown, devtools
MatchIt, WeightIt (>= 0.3.0), twang, Matching, optmatch,
ebal, CBPS (>= 0.17), mice, knitr, rmarkdown
MatchIt, WeightIt (>= 0.3.0), twang, Matching, optmatch,
ebal, CBPS (>= 0.17), designmatch, mice, knitr, rmarkdown
MatchIt, WeightIt (>= 0.3.0), twang, Matching, optmatch,
ebal, CBPS (>= 0.17), designmatch, optweight, mice, knitr,
rmarkdown
MatchIt, WeightIt (>= 0.5.0), twang, Matching, optmatch,
ebal, CBPS (>= 0.17), designmatch, optweight, mice, knitr,
rmarkdown
MatchIt, WeightIt (>= 0.5.0), twang, Matching, optmatch,
ebal, CBPS (>= 0.17), designmatch, optweight, mice, mlogit (>=
0.3-0), knitr, rmarkdown
MatchIt, WeightIt (>= 0.5.0), twang, Matching, optmatch,
ebal, CBPS (>= 0.17), designmatch, optweight, mice, MatchThem,
mlogit (>= 0.3-0), knitr, rmarkdown
MatchIt, WeightIt (>= 0.5.0), twang, Matching, optmatch, cem,
ebal, CBPS (>= 0.17), designmatch, optweight, mice (>= 3.8.0),
MatchThem (>= 0.9.3), sbw, mlogit, knitr, rmarkdown
MatchIt, WeightIt (>= 0.5.0), twang (>= 1.6), Matching,
optmatch, cem, ebal, CBPS (>= 0.17), designmatch, optweight,
mice (>= 3.8.0), MatchThem (>= 0.9.3), sbw, mlogit, knitr,
rmarkdown
MatchIt, WeightIt (>= 0.5.0), twang (>= 1.6), Matching,
optmatch, ebal, CBPS (>= 0.17), designmatch, optweight, mice
(>= 3.8.0), MatchThem (>= 0.9.3), sbw, mlogit, knitr, rmarkdown
MatchIt, WeightIt (>= 0.5.0), twang (>= 1.6), Matching,
optmatch, ebal, CBPS (>= 0.17), designmatch, optweight, mice
(>= 3.8.0), MatchThem (>= 0.9.3), sbw (>= 1.1.1), cem (>=
1.1.27), mlogit, knitr, rmarkdown
MatchIt, WeightIt (>= 0.5.0), twang (>= 1.6), Matching,
optmatch, ebal, CBPS (>= 0.17), designmatch, optweight, mice
(>= 3.8.0), MatchThem (>= 0.9.3), cem (>= 1.1.27), mlogit,
knitr, rmarkdown
MatchIt (>= 4.0.0), WeightIt (>= 0.12.0), twang (>= 1.6),
twangContinuous, Matching, optmatch, ebal, CBPS (>= 0.17),
designmatch, optweight, mice (>= 3.8.0), MatchThem (>= 0.9.3),
cem (>= 1.1.30), sbw (>= 1.1.5), knitr, rmarkdown
MatchIt (>= 4.0.0), WeightIt (>= 0.12.0), twang (>= 1.6),
twangContinuous, Matching, optmatch, ebal, CBPS (>= 0.17),
designmatch, optweight, mice (>= 3.8.0), MatchThem (>= 0.9.3),
cem (>= 1.1.30), sbw (>= 1.1.5), knitr, rmarkdown, testthat (>=
3.0.0)
knitr, rmarkdown, testthat (>= 2.1.0), ggplot2
zCompositions, testthat (>= 2.1.0), knitr, rmarkdown
knitr, ggtern, gtools, remotes, testthat, markdown
knitr, robCompositions, gtools, remotes, testthat, markdown
knitr, gtools, remotes, testthat, rmarkdown
testthat, shinytest, lme4, roxygen2, renv, webshot
testthat, DT, shinytest, lme4, rmarkdown, rstudioapi (>=
0.5), shiny (>= 0.13), miniUI (>= 0.1.1), roxygen2, webshot,
rio, psych, future, ufs, userfriendlyscience
testthat, jsonvalidate, covr, knitr, rmarkdown, httr,
magrittr, xml2, dplyr (>= 0.7.0), tibble, purrr, printr
testthat, jsonvalidate, covr, knitr, rmarkdown, magrittr,
xml2, dplyr (>= 0.7.0), printr
testthat, jsonld, jsonvalidate, covr, knitr, rmarkdown, dplyr
(>= 0.7.0), printr
covr, details, dplyr (>= 0.7.0), jsonld, jsonvalidate, knitr,
printr, rmarkdown, testthat (>= 2.1.0)
withr, covr, details, dplyr (>= 0.7.0), jsonld, jsonvalidate,
knitr, printr, rmarkdown, testthat (>= 3.0.0), usethis
covr, testthat, knitr, rmarkdown, writexl
testthat (>= 3.0.0), reticulate (>= 1.26)
devtools, REDCapR, rmarkdown, testthat (>= 2.0)
covr, readr (>= 1.1.0), REDCapR, rmarkdown, testthat (>= 3.0)
knitr, MASS, dplyr, car, ggplot2, xtable
testthat, knitr, ggplot2, reshape2, devtools, dplyr
testthat, knitr, ggplot2, reshape2, devtools, dplyr,
rmarkdown
testthat, knitr, ggplot2, pillar, reshape2, devtools, dplyr,
rmarkdown
testthat (>= 2.0.0), covr, glmnet, maxLik, xgboost, knitr,
rmarkdown
testthat (>= 2.0.0), covr, glmnet, maxLik, xgboost,
workflows, parsnip, knitr, rmarkdown
testthat (>= 3.0.0), shiny, knitr, rmarkdown
knitr, rmarkdown, ggplot2, lattice, mstate
knitr, rmarkdown, lattice, mstate, testthat
parallel, xtable, e1071, vcd, TH.data (>= 1.0-7)
parallel, xtable, e1071, vcd, TH.data (>= 1.0-7), libcoin (>=
0.9-0)
testthat, knitr, rmarkdown, ggthemes, dplyr
dplyr, plm, data.table, ggplot2, scales, vars, knitr,
rmarkdown, testthat, microbenchmark
dplyr, plm, data.table, matrixStats, magrittr, ggplot2,
scales, vars, knitr, rmarkdown, testthat, microbenchmark
dplyr, plm, data.table, matrixStats, magrittr, ggplot2,
scales, vars, knitr, rmarkdown, testthat, microbenchmark, covr
lfe, dplyr, plm, data.table, matrixStats, magrittr,
RcppArmadillo, RcppEigen, ggplot2, scales, vars, knitr,
rmarkdown, testthat, microbenchmark, covr
dplyr, plm, data.table, matrixStats, magrittr, lfe,
RcppArmadillo, RcppEigen, ggplot2, scales, vars, knitr,
rmarkdown, testthat, microbenchmark, covr
dplyr, plm, data.table, matrixStats, magrittr, fixest, vars,
weights, RcppArmadillo, RcppEigen, ggplot2, scales,
microbenchmark, testthat, covr
dplyr, plm, data.table, matrixStats, magrittr, fixest, lfe,
vars, weights, kit, RcppArmadillo, RcppEigen, ggplot2, scales,
microbenchmark, testthat, covr
dplyr, plm, data.table, matrixStats, magrittr, fixest, lfe,
vars, weights, kit, RcppArmadillo, RcppEigen, ggplot2, scales,
microbenchmark, testthat, covr, knitr, rmarkdown
dplyr, plm, data.table, matrixStats, magrittr, fixest, lfe,
vars, weights, kit, RcppArmadillo, RcppEigen, ggplot2, scales,
microbenchmark, knitr, rmarkdown
plm, data.table, sf, matrixStats, magrittr, fixest, lfe,
vars, weights, kit, RcppArmadillo, RcppEigen, dplyr, ggplot2,
scales, microbenchmark, testthat, covr, knitr, rmarkdown
data.table, sf, matrixStats, magrittr, kit, plm, fixest,
vars, weights, RcppArmadillo, RcppEigen, dplyr, ggplot2,
scales, microbenchmark, testthat, covr, knitr, rmarkdown
fastverse, data.table, magrittr, kit, sf, plm, fixest, vars,
RcppArmadillo, RcppEigen, dplyr, ggplot2, scales,
microbenchmark, testthat, covr, knitr, rmarkdown
fastverse, data.table, magrittr, kit, sf, xts, zoo, plm,
fixest, vars, RcppArmadillo, RcppEigen, tibble, dplyr, ggplot2,
scales, microbenchmark, testthat, covr, knitr, rmarkdown
fastverse, data.table, magrittr, kit, xts, zoo, plm, fixest,
vars, RcppArmadillo, RcppEigen, tibble, dplyr, ggplot2, scales,
microbenchmark, testthat, covr, knitr, rmarkdown
colorspace, RColorBrewer, dplyr, testthat, tibble
dplyr, knitr, magrittr, rmarkdown, tidyverse
dplyr, tibble, tidyr, furrr, ggplot2, knitr, rmarkdown,
testthat
roxygen2, testthat (>= 3.0.0), devtools, covr, DT, pkgdown,
servr, tinytex, knitr, rmarkdown
knitr, testthat, snpStats, mvtnorm, magrittr, rmarkdown
testthat, shinytest, covr, knitr, rmarkdown, devtools, purrr,
shinyBS
knitr, reshape2, stats, png, markdown, rmarkdown
knitr, rmarkdown, fansi, tidyverse, data.table, testthat (>=
2.1.0)
knitr, rmarkdown, fansi, htmltools, tidyverse, data.table,
testthat (>= 2.1.0)
knitr, rmarkdown, fansi, htmltools, data.table, testthat (>=
2.1.0), tibble, dplyr, tidyr
rootSolve, rgl, knitr, rmarkdown, spacesRGB, microbenchmark,
arrangements
rootSolve, quadprog, rgl, knitr, rmarkdown, spacesRGB,
microbenchmark, arrangements
spacesXYZ, rootSolve, MASS, quadprog, rgl, knitr, rmarkdown,
spacesRGB, microbenchmark, arrangements
rcartocolor, testthat, knitr, rmarkdown, covr, vdiffr
knitr, RColorBrewer, rmarkdown, sf, rnaturalearth, tigris
testthat, maps, mapproj, knitr, rmarkdown, covr
KernSmooth, MASS, kernlab, mvtnorm, vcd, tcltk, dichromat
KernSmooth, MASS, kernlab, mvtnorm, vcd, dichromat
KernSmooth, MASS, kernlab, mvtnorm, vcd, dichromat, tcltk
datasets, stats, utils, KernSmooth, MASS, kernlab, mvtnorm,
vcd, dichromat, tcltk
datasets, stats, utils, KernSmooth, MASS, kernlab, mvtnorm,
vcd, dichromat, tcltk, shiny, shinyjs
datasets, utils, KernSmooth, MASS, kernlab, mvtnorm, vcd,
tcltk, shiny, shinyjs, ggplot2, dplyr, scales, grid, png, jpeg,
knitr, rmarkdown, RColorBrewer, rcartocolor, scico, viridis
datasets, utils, KernSmooth, MASS, kernlab, mvtnorm, vcd,
tcltk, shiny, shinyjs, ggplot2, dplyr, scales, grid, png, jpeg,
knitr, rmarkdown, RColorBrewer, rcartocolor, scico, viridis,
wesanderson
knitr (>= 1.7), rmarkdown, rstudioapi (>= 0.5)
knitr (>= 1.7), rmarkdown, rstudioapi (>= 0.5),
shinydisconnect
covr, microbenchmark, ggplot2, scales, testthat, viridisLite
covr, microbenchmark, scales, testthat, viridisLite
testthat, knitr, rmarkdown, corrplot, rgl
testthat (>= 3.0.0), knitr, markdown, rmarkdown, covr
covr, curl, git2r (>= 0.22.1), httptest, ps, testthat
covr, curl, git2r (>= 0.22.1), ps, testthat
knitr, rmarkdown, testthat (>= 3.0.0), glue
rscala (>= 3.2.13), rJava (>= 0.9-10), testthat, knitr
rscala (>= 3.2.14), rJava (>= 0.9-10), testthat, knitr
rscala (>= 3.2.14), rJava (>= 0.9-10), testthat, knitr,
rmarkdown
rscala (>= 3.2.17), rJava (>= 0.9-10), testthat, knitr,
rmarkdown
rscala (>= 3.2.3), rJava (>= 0.9-10), testthat, knitr
tcltk2, car, XLConnect, shiny, shinyBS, shinyjs, shinythemes,
DT
tcltk2, car, shiny, shinyBS, shinyjs, DT, xlsx
tcltk2, car, XLConnect, shiny, shinyBS, shinyjs, shinythemes,
DT, xlsx
tcltk2, shiny, shinyBS, shinyjs, DT, xlsx, formatR
tcltk2, shiny, shinyBS, shinyjs, DT, xlsx
tcltk2, shiny, shinyBS, shinyjs, shinyjqui, shinythemes,
shinyWidgets, DT, readxl, haven
tcltk2, shiny, shinyBS, shinyjs, shinyjqui, shinythemes,
shinyWidgets, shinydashboardPlus, DT, readxl, haven
tcltk2, shiny, shinyBS, shinyjs, shinyjqui, shinythemes,
shinyWidgets, shinydashboardPlus, DT, readxl, haven, SNPassoc
testthat (>= 3.0.0), knitr, rmarkdown, rjags, rstan
plyr, testthat, covr, knitr, rmarkdown, microbenchmark
plyr, progress, testthat, covr, knitr, ggplot2, parallel,
snow, rmarkdown, reshape, microbenchmark
plyr, progress, testthat, covr, knitr, ggplot2, parallel,
snow, rmarkdown, reshape, tibble, microbenchmark
plyr, progress, testthat (>= 2.1.0), covr, knitr, ggplot2,
GGally, parallel, snow, rmarkdown, reshape, tibble, lhs,
DiceKriging, DiceOptim, reshape2, microbenchmark
RcppArmadillo (>= 0.9.100.5.0), ggplot2, testthat, rpart,
mboost, knitr, rmarkdown, titanic, mlr, gridExtra
inSilicoDb, limma, hgu133a.db, GSVA, GSVAdata
inSilicoDb, genefilter, gplots, GSVA, limma,
mogene10sttranscriptcluster.db, RColorBrewer
inSilicoDb, genefilter, GEOmetadb, gplots, GSVA, limma,
mogene10sttranscriptcluster.db, RColorBrewer
knitr, rmarkdown, tourr, stringr, broom, rgdal
knitr, rmarkdown, tourr, stringr, broom, maptools
knitr, markdown, rmarkdown, testthat, bookdown
testthat, knitr, rmarkdown, ggplot2, dplyr
SnowballC (>= 0.7.0), hunspell, knitr, rmarkdown, formatR
DT, knitr, rmarkdown, tidyverse, testthat (>= 3.0.0)
rmarkdown, knitr, devtools, kableExtra, ggplot2, testthat (>=
3.0.0), covr
covr, roxygen2, spelling, testthat, rmarkdown, Lock5Data
covr, roxygen2, spelling, testthat, rmarkdown, Lock5Data,
carData, bench, brms, rstan, rstanarm, bayesplot, vdiffr
MASS, lme4, covr, roxygen2, spelling, testthat, rmarkdown,
Lock5Data, carData, bench, rms, brms, rstan, rstanarm,
bayesplot, vdiffr, ggtext, daewr, svglite, data.table, nlme,
simstudy, patchwork, cowplot, reprex
formatR, knitr, rmarkdown, roxygen2, sessioninfo, spelling,
testthat
shiny, testthat (>= 1.0), xlsx (>= 0.5.7), rJava
promises, shiny (>= 1.0.5), testthat (>= 1.0)
knitr, rmarkdown, whisker, testthat, RSQLite
RColorBrewer, shiny, scagnostics, cluster, hdrcde, gplots,
TSP
RColorBrewer, shiny, scagnostics, cluster, hdrcde, gplots,
TSP, DendSer, testthat
knitr, rmarkdown, hdrcde, scagnostics, keras, kernlab,
mclust, MASS, ks, mgcv, randomForest, parsnip, mlr, C50,
bartMachine, caret, e1071, gbm, glmnet, glmnetUtils, mlr3,
nnet, rpart, tree, testthat
knitr, rmarkdown, hdrcde, scagnostics, keras, kernlab,
mclust, MASS, ks, mgcv, randomForest, parsnip, mlr, C50,
bartMachine, BART, caret, e1071, gbm, glmnet, glmnetUtils,
mlr3, nnet, rpart, tree, testthat
testthat, knitr, rmarkdown, covr, spelling
callr, crayon, dplyr, Matrix, methods, pkgload, testthat (>=
3.0.0)
rstanarm, brms, testthat (>= 3.0.0), ggplot2, knitr,
rmarkdown
httptest2, spelling, testthat (>= 3.0.0)
covr, knitr, rmarkdown, ggplot2, devtools
devtools, ggplot2, httptest, knitr, rmarkdown, covr
crayon, flexdashboard, ggplot2, gridExtra, htmltools, knitr,
lubridate, processx, rmarkdown, rprojroot, spelling, testthat,
rsconnect, webshot2, covr, mockery, devtools
knitr, lintr, rmarkdown, testthat, webmockr, withr
AnnotationDbi, BiocParallel, conosPanel, DESeq2, entropy,
ggrastr, GO.db, jsonlite, knitr, org.Hs.eg.db, org.Mm.eg.db,
p2data, pagoda2, pbapply, PMA, pROC, plyr, rhdf5, rmarkdown,
rmumps, Seurat, shinycssloaders, SummarizedExperiment,
testthat, tibble, uwot, zoo
AnnotationDbi, BiocParallel, conosPanel, drat, DESeq2,
entropy, ggrastr, GO.db, jsonlite, knitr, org.Hs.eg.db,
org.Mm.eg.db, p2data, pagoda2, pbapply, PMA, pROC, plyr, rhdf5,
rmarkdown, rmumps, Seurat, shinycssloaders,
SummarizedExperiment, testthat, tibble, uwot, zoo
AnnotationDbi, BiocParallel, conosPanel, drat, DESeq2,
entropy, ggrastr, GO.db, jsonlite, knitr, org.Hs.eg.db,
org.Mm.eg.db, p2data, pagoda2, PMA, plyr, rhdf5, rmarkdown,
rmumps, Seurat, shinycssloaders, SummarizedExperiment,
testthat, tibble, uwot, zoo
testthat (>= 3.0.0), knitr, rmarkdown, covr, stringi
errors (>= 0.3.6), units, quantities, testthat
knitr, rmarkdown, ggplot2, devtools, testthat
countrycode, ggplot2, knitr, rmarkdown, spelling, testthat,
covr
countrycode, ggplot2, knitr, rmarkdown, spelling, testthat(>=
3.0.0), covr
knitr, tinytest, rmarkdown, microbenchmark, ggplot2, dplyr,
tibble
knitr, tinytest, rmarkdown, microbenchmark, ggplot2, dplyr,
tibble, testthat (>= 3.0.0)
knitr, rmarkdown, testthat, covr, thor, vroom, spelling
testthat, vdiffr, covr, knitr, here, rmarkdown, devtools,
ggplot2
testthat, RCurl, splitstackshape, covr, knitr, here,
rmarkdown, devtools, ggplot2, vdiffr
lattice, nlme, Hmisc, geepack, MASS, sandwich
knitr, kableExtra, dplyr, ggplot2, tidyr, rmarkdown,
testthat, covr, geepack
knitr, kableExtra, dplyr, ggplot2, tidyr, rmarkdown,
testthat, covr, geepack, splines
survival, pammtools, gganimate, transformr, plotly, reshape2,
doParallel, knitr, rmarkdown, testthat (>= 3.0.0), vdiffr (>=
1.0.0), covr
devtools, formattable, gridExtra, kableExtra, knitr,
magrittr, readr, readxl, tidyverse, rvest, testthat, utf8
devtools, formattable, gridExtra, knitr, kableExtra,
magrittr, readr, readxl, tidyverse, rvest, testthat, utf8
testthat, knitr, rmarkdown, IC2, vardpoor, DBI, MonetDBLite,
RODBC
testthat, knitr, rmarkdown, IC2, vardpoor, DBI, RODBC,
MonetDBLite
testthat, knitr, rmarkdown, IC2, vardpoor, laeken, DBI,
RODBC, RSQLite, srvyr
testthat, knitr, rmarkdown, vardpoor, laeken, DBI, RSQLite
memuse, microbenchmark, rbenchmark, knitr, rmarkdown
lattice, MASS, Matrix, KernSmooth, sfsmisc, Rmpfr, bbmle,
scatterplot3d
lattice, MASS, Matrix, KernSmooth, sfsmisc, bbmle,
scatterplot3d, Rmpfr, mvnormtest, tseries, zoo
lattice, MASS, KernSmooth, sfsmisc, bbmle, scatterplot3d,
Rmpfr, rugarch, colorspace, mvnormtest, tseries, zoo
MASS, KernSmooth, sfsmisc, bbmle, scatterplot3d, Rmpfr,
partitions, polynom, rugarch, colorspace, mvnormtest, tseries,
zoo
MASS, KernSmooth, sfsmisc, scatterplot3d, Rmpfr, bbmle,
partitions, polynom, rugarch, colorspace, mvnormtest, tseries,
zoo
MASS, KernSmooth, sfsmisc, scatterplot3d, Rmpfr, bbmle,
knitr, parallel, mvnormtest, partitions, polynom, randtoolbox,
rugarch, Runuran, tseries, VGAM, VineCopula, zoo
MASS, KernSmooth, sfsmisc, scatterplot3d, Rmpfr, bbmle,
knitr, parallel, lcopula, mvnormtest, partitions, polynom,
randtoolbox, rugarch, Runuran, tseries, VGAM, VineCopula, zoo
MASS, KernSmooth, sfsmisc, scatterplot3d, Rmpfr, bbmle,
knitr, parallel, gridExtra, lcopula, mvnormtest, partitions,
polynom, qrng, randtoolbox, rugarch, Runuran, tseries, VGAM,
VineCopula, zoo
MASS, KernSmooth, sfsmisc, scatterplot3d, Rmpfr, bbmle,
knitr, abind, crop, gridExtra, lcopula, mev, mvnormtest,
parallel, partitions, polynom, qrng, randtoolbox, rugarch,
Runuran, tseries, VGAM, VineCopula, zoo
lattice, MASS, Matrix, KernSmooth, sfsmisc, bbmle,
scatterplot3d, Rmpfr, colorspace, mvnormtest, tseries, zoo
lattice, MASS, KernSmooth, sfsmisc, bbmle, scatterplot3d,
Rmpfr, colorspace, mvnormtest, tseries, zoo
MASS, KernSmooth, sfsmisc, scatterplot3d, Rmpfr, bbmle,
knitr, rmarkdown, abind, crop, gridExtra, lcopula, mev,
mvnormtest, parallel, partitions, polynom, qrng, randtoolbox,
rugarch, Runuran, tseries, VGAM, VineCopula, zoo
rmarkdown, knitr, ggplot2, testthat (>= 3.1.1), Ball (>=
1.3.0), energy (>= 1.7-0),
knitr, rmarkdown, testthat, covr, limma, R.rsp
knitr, rmarkdown, testthat, covr, limma, slam, R.rsp
knitr, later (>= 1.1.0), magrittr (>= 2.0.0), promises,
reticulate, rmarkdown, testthat (>= 3.0.0)
dplyr, knitr, rmarkdown, devtools, remotes, testthat (>=
2.1.0)
DT, dplyr, knitr, plotly, rmarkdown, remotes, testthat (>=
2.1.0)
DT, dplyr, knitr, plotly, readr, remotes, rmarkdown, testthat
(>= 2.1.0)
DT, dplyr, knitr, plotly, readr, rmarkdown, remotes, testthat
(>= 2.1.0)
testthat, quanteda (>= 0.99.9), tm (>= 0.6), topicmodels,
RNewsflow, igraph
testthat, quanteda (>= 1.1.1), tm (>= 0.6), topicmodels,
igraph
testthat, quanteda (>= 1.1.1), tm (>= 0.6), topicmodels,
igraph, knitr, rmarkdown
testthat, tm (>= 0.6), topicmodels, knitr, rmarkdown
testthat, tm (>= 0.6), topicmodels, knitr, rmarkdown, gender
knitr, rmarkdown, R.rsp, testthat, rgl (>= 0.93.996-1)
knitr, rmarkdown, R.rsp, testthat, rgl (>= 0.93.996-1),
profr, xtable
covr, dplyr, knitr, mvtnorm, rmarkdown, testthat, simGWAS,
pkgdown
covr, dplyr, knitr, mvtnorm, rmarkdown, testthat, pkgdown
BayesFactor, dplyr, energy, ggcorrplot, ggplot2, Hmisc,
knitr, lme4, polycor, ppcor, psych, rmcorr, testthat, tidyr,
covr, rstanarm, rmarkdown, see, WRS2
BayesFactor, dplyr, energy, forcats, ggcorrplot, ggplot2,
Hmisc, knitr, lme4, polycor, ppcor, psych, rmcorr, testthat,
tidyr, covr, rstanarm, rmarkdown, see, wdm, WRS2
BayesFactor, dplyr, energy, forcats, ggcorrplot, ggplot2,
Hmisc, knitr, lme4, polycor, ppcor, psych, rmcorr, testthat,
tidyr, rstanarm, rmarkdown, see, wdm, WRS2, spelling
BayesFactor, dplyr, energy, forcats, ggcorrplot, ggplot2, gt,
Hmisc, knitr, lme4, polycor, ppcor, psych, rmarkdown, rmcorr,
rstanarm, see, spelling, testthat (>= 3.0.1), tidyr, wdm, WRS2
BayesFactor, dplyr, energy, forcats, ggcorrplot, ggplot2, gt,
Hmisc, knitr, lme4, mbend, polycor, ppcor, psych, rmarkdown,
rmcorr, rstanarm, see, spelling, testthat (>= 3.0.1), tidyr,
wdm, WRS2
BayesFactor, poorman, energy, forcats, ggcorrplot, ggplot2,
ggraph, gt, Hmisc, knitr, lme4, mbend, polycor, ppcor, psych,
rmarkdown, rmcorr, rstanarm, see, spelling, testthat (>=
3.0.1), tidyr, tidygraph, wdm, WRS2
BayesFactor, poorman, energy, ggplot2, ggraph, gt, Hmisc,
knitr, lme4, mbend, polycor, ppcor, psych, rmarkdown, rmcorr,
rstanarm, see, testthat (>= 3.1.0), tidygraph, wdm, WRS2
scales, knitr, rmarkdown, covr, lubridate, testthat (>=
2.1.0)
gridBase, knitr, Matrix, rmarkdown, testthat
gridBase, knitr, Matrix, psych, rmarkdown, sfsmisc, testthat
gridBase, knitr, Matrix, psych, rmarkdown, seriation,
sfsmisc, testthat
rmarkdown, testthat, gbm, ranger, spelling, covr
rmarkdown, testthat, DALEX, gbm, ranger, spelling, covr
knitr, RColorBrewer, rmarkdown, prettydoc, testthat
seriation, knitr, RColorBrewer, rmarkdown, magrittr,
prettydoc, testthat
testthat (>= 2.1.0), knitr (>= 1.13), rmarkdown (>= 0.9.6),
dbplyr (>= 1.2.1), DBI, RSQLite, sparklyr (>= 0.9), covr
covr, DBI, dbplyr (>= 1.2.1), knitr (>= 1.13), rmarkdown (>=
0.9.6), RSQLite, sparklyr (>= 0.9), testthat (>= 3.0.0)
covr, testthat (>= 2.1.0), spelling, knitr, rmarkdown
TH.data, knitr, lattice, colorspace, multcomp
TH.data, knitr, lattice, colorspace, multcomp, mvtnorm,
numDeriv
dplyr, utils, testthat, shinythemes, rhandsontable,
gridExtra, pscl, DT, rmarkdown, knitr
dplyr, DT, gridExtra, knitr, pander, reshape2, rmarkdown,
shinythemes, shinycssloaders, shinyWidgets, spelling, testthat
tidyverse, viridis, gridExtra, igraph, RSpectra, matrixTests,
rdist, stats, Seurat, testthat (>= 3.0.0)
testthat, knitr, rmarkdown, hurricaneexposure, scales
choroplethr (>= 3.5.2), choroplethrMaps (>= 1.0), ggplot2 (>=
2.1.0), knitr, rmarkdown
MASS, knitr, rmarkdown, ggridges, plotly
MASS, knitr, rmarkdown, mrgsolve, ggrepel, table1, patchwork,
bayestestR, plotly, scales, Rcpp
clipr, formatR, MASS, knitr, rmarkdown, mrgsolve, ggridges,
ggrepel, ggstance, patchwork, bayestestR, plotly, scales,
shinyAce, Rcpp, gamlss.dist
clipr, formatR, MASS, knitr, rmarkdown, mrgsolve, ggridges,
ggrepel, patchwork, bayestestR, plotly, scales, shinyAce, Rcpp,
gamlss.dist
clipr, formatR, MASS, knitr, rmarkdown, mrgsolve, ggridges,
ggrepel, ggstance, patchwork, plotly, scales, shinyAce, Rcpp,
gamlss.dist
markdown, dplyr, tidyr, shinyjs, shinymeta, table1, clipr,
formatR, MASS, knitr, rmarkdown, mrgsolve, GGally, ggridges,
ggrepel, ggstance, patchwork, plotly, scales, shinyAce, Rcpp,
gamlss.dist, ggh4x, ggpmisc, quantreg
knitr, devtools, roxygen2, markdown, testthat
knitr, devtools, roxygen2, markdown, rmarkdown, testthat
ggrepel, kableExtra, knitr, leaflet, pracma, plotly,
rmarkdown, testthat, tidyverse
knitr, rmarkdown, data.tree, DT, networkD3
testthat, purrr, dplyr, readr, jsonlite, log4r, rJava,
tabulizer, modules, stringr, rvest, xml2, pointblank
gganimate, ggplot2, knitr, rgeos, rgdal, rmarkdown,
rnaturalearth, sf, testthat
dplyr (>= 0.8.5), tidyr (>= 1.0.0), knitr, rmarkdown,
testthat
gridExtra, httptest, knitr, mockery, rmarkdown, testthat,
tibble, vdiffr
covr, cowplot, crayon, dbplyr, EpiEstim, ggformula, ggplot2,
ggstream, ggtext (>= 0.1.0), glue, lubridate, MetBrewer,
remotes, rmarkdown, rstudioapi, scales, sessioninfo, testthat
(>= 3.0.0), tidyverse, usethis
data.table, pkgdown, testthat, spelling, knitr, rmarkdown,
rworldmap, ggplot2
ggplot2, knitr, mockery, pkgdown, rmarkdown, rworldmap,
spelling, testthat (>= 3.0.0), usethis
ggplot2, knitr, mockery, pkgdown, rmarkdown, rvest,
rworldmap, spelling, testthat (>= 3.0.0), usethis
ggplot2, ggspatial, knitr, mockery, pkgdown, rmarkdown,
rvest, rworldmap, sf, spelling, testthat (>= 3.0.0), usethis
ggplot2, ggspatial, knitr, mockery, rmarkdown, RSocrata,
rvest, rworldmap, sf, spelling, testthat (>= 3.0.0), usethis
knitr, rmarkdown, stringi, devtools, usethis
knitr, knitcitations, roxygen2, quantmod, PortfolioAnalytics,
rmgarch
R6, knitr, shiny (>= 0.11.1), testthat, rstudioapi (>= 0.2)
R6, knitr, shiny (>= 0.11.1), DT, testthat, rstudioapi (>=
0.2)
R6, knitr, rmarkdown, shiny (>= 0.11.1), htmltools, DT,
testthat, rstudioapi (>= 0.2), devtools
R6, knitr, rmarkdown, shiny (>= 0.11.1), htmltools,
htmlwidgets (>= 0.7), DT, testthat, rstudioapi (>= 0.2),
devtools, xml2 (>= 1.0.0), parallel
R6, knitr, rmarkdown, shiny (>= 0.11.1), htmltools,
htmlwidgets (>= 0.7), DT (>= 0.2), testthat, rstudioapi (>=
0.2), devtools, xml2 (>= 1.0.0), parallel
R6, knitr, rmarkdown, shiny (>= 0.11.1), htmltools,
htmlwidgets (>= 0.7), DT (>= 0.2), testthat, rstudioapi (>=
0.2), devtools, xml2 (>= 1.0.0), parallel, memoise
R6, knitr, rmarkdown, shiny (>= 0.11.1), htmltools,
htmlwidgets (>= 0.7), DT (>= 0.2), testthat, rstudioapi (>=
0.2), xml2 (>= 1.0.0), parallel, memoise, mockery
R6, knitr, rmarkdown, htmltools, DT (>= 0.2), testthat,
rstudioapi (>= 0.2), xml2 (>= 1.0.0), parallel, memoise,
mockery
R6, knitr, rmarkdown, htmltools, DT (>= 0.2), testthat,
rlang, rstudioapi (>= 0.2), xml2 (>= 1.0.0), parallel, memoise,
mockery
R6, curl, knitr, rmarkdown, htmltools, DT (>= 0.2), testthat,
rlang, rstudioapi (>= 0.2), xml2 (>= 1.0.0), parallel, memoise,
mockery
R6, curl, knitr, rmarkdown, htmltools, DT (>= 0.2), testthat,
rlang, rstudioapi (>= 0.2), xml2 (>= 1.0.0), parallel, memoise,
mockery, covr
covr, gridGraphics, knitr, magick, maps, dplyr, tidyr,
testthat, vdiffr, viridis
covr, gridGraphics, knitr, rmarkdown, magick, maps, dplyr,
tidyr, testthat, vdiffr, viridis
Cairo, covr, dplyr, forcats, gridGraphics (>= 0.4-0), knitr,
lattice, magick, maps, PASWR, rmarkdown, testthat (>= 1.0.0),
tidyr, vdiffr (>= 0.3.0), VennDiagram
Cairo, covr, dplyr, forcats, gridGraphics (>= 0.4-0), knitr,
lattice, magick, maps, PASWR, patchwork, rmarkdown, ragg,
testthat (>= 1.0.0), tidyr, vdiffr (>= 0.3.0), VennDiagram
roxygen2 (>= 6.0.1), jsonlite, testthat, knitr, rmarkdown
curl, jsonlite, knitr, multicolor, rmarkdown, roxygen2 (>=
6.1.0), testthat
curl, jsonlite, knitr, multicolor, rmarkdown, testthat
coxme, gdsfmt, GENESIS, knitr, rmarkdown, testthat
BEST, mlr3learners, ranger, glmnet, testthat (>= 3.0.0),
knitr, rmarkdown, doParallel
bench, brio, cli, callr, covr, decor, desc, glue, ggplot2,
knitr, lobstr, mockery, scales, testthat, tibble, utils, vctrs,
withr, xml2, rmarkdown
bench, brio, callr, cli, covr, decor, desc, ggplot2, glue,
knitr, lobstr, mockery, progress, rmarkdown, scales, testthat,
tibble, utils, vctrs, withr
bench, brio, callr, cli, covr, decor, desc, ggplot2, glue,
knitr, lobstr, mockery, progress, rmarkdown, scales, Rcpp,
testthat, tibble, utils, vctrs, withr
htmltools, shinyAce, shinybusy, shinyFiles, shinyjqui,
shinyWidgets
covr, geepack, knitr, Matrix, testthat, rmarkdown
knitr, rmarkdown, survey, srvyr, here, scales, ggplot2, usmap
testthat (>= 2.1.0), covr, tibble, knitr, rmarkdown, leaflet,
scales, htmltools
testthat (>= 3.0.0), knitr, MASS, rmarkdown
ggplot2, tibble, visNetwork, knitr, rmarkdown
ggplot2, knitr, rmarkdown, sp, rgdal, argosfilter, tidyr,
dplyr, lubridate, xts, doParallel
ggplot2, rgdal, argosfilter, tidyr, lubridate, xts, broom,
sf, doParallel
ggplot2, rgdal, argosfilter, tidyr, xts, broom, doParallel
distributions3 (>= 0.2.1), glmx, lmtest, memisc
knitr, openxlsx, plot3D, rmarkdown, pals
knitr, openxlsx, plot3D, rmarkdown, pals, RSQLite
gghighlight, ggplot2, ggtext, glue, knitr, paletteer,
patchwork, rmarkdown, showtext, tidyverse
gghighlight, ggplot2, ggtext, glue, here, knitr, paletteer,
patchwork, rmarkdown, R.rsp, showtext, tidyverse
roxygen2 (>= 6.0.1), rcrossref, testthat
roxygen2 (>= 7.1.0), rcrossref, testthat
roxygen2 (>= 7.1.0), rcrossref, testthat, vcr (>= 0.5.4)
knitr, miniUI, shiny (>= 0.11), shinyFiles (>= 0.6.0),
testthat
knitr, rmarkdown, miniUI, shiny (>= 0.11), shinyFiles (>=
0.6.0), testthat
knitr, rmarkdown, miniUI, shiny (>= 0.11), shinyFiles (>=
0.6.0), tinytest
miniUI, shiny (>= 0.11), shinyFiles (>= 0.6.0), tinytest
tidyverse, rmarkdown, knitr, testthat (>= 3.0.0)
broom, covr, crayon, dplyr (>= 1.0.0), furrr, future, stats,
testthat
broom, covr, crayon, dplyr (>= 1.0.0), furrr, future, stats,
testthat, tibble
covr, crayon, furrr, future, stats, testthat, tibble, withr
broom, covr, crayon, estimatr, furrr, future, testthat,
tibble, withr
covr, crayon, xml2, DescTools, digest, gt, expss, ggplot2,
gmodels, Hmisc, jsonlite, knitr, openxlsx, rmarkdown, sloop,
stringi, systemfonts, testthat, withr, waldo,
covr, crayon, xml2, digest, gt, expss, ggplot2, gmodels,
Hmisc, jsonlite, knitr, openxlsx, rmarkdown, sloop, stringi,
systemfonts, testthat, withr, waldo,
covr, crayon, xml2, digest, gt, expss, ggplot2, gmodels,
Hmisc, jsonlite, knitr, openxlsx, rmarkdown, sloop, stringi,
survival, systemfonts, testthat, withr, waldo,
callr, covr, crayon, xml2, digest, gt, expss, ggplot2,
gmodels, Hmisc, jsonlite, knitr, openxlsx, rmarkdown, sloop,
stringi, survival, systemfonts, testthat (>= 3.0.0), withr,
waldo
shiny, ggplot2, testthat (>= 2.1.0), sass, bslib
tidygraph, ggraph, testthat (>= 2.0.0), knitr, rmarkdown,
covr
tidygraph, ggraph, testthat (>= 2.0.0), knitr, rmarkdown
covr, httptest (>= 3.0.0), magrittr, spelling, vdiffr, knitr,
testthat, rmarkdown
covr, magrittr, spelling, vdiffr, knitr, testthat, rmarkdown
np, npRmpi, rgl, quadprog, quantreg, logspline
testthat, knitr, e1071, randomForest, rpart, adabag,
rmarkdown
testthat, fauxpas (>= 0.1.0), knitr, covr, jsonlite
testthat, fauxpas (>= 0.1.0), knitr, rmarkdown, covr,
jsonlite
testthat, fauxpas (>= 0.1.0), webmockr (>= 0.1.0), knitr,
jsonlite
testthat, fauxpas (>= 0.1.0), webmockr (>= 0.1.0), knitr
testthat, roxygen2 (>= 7.1.1), fauxpas (>= 0.1.0), webmockr
(>= 0.1.0), knitr, rmarkdown
covr, devtools, httptest (>= 2.0.0), knitr
covr, devtools, httptest (>= 2.0.0), knitr, rmarkdown,
rstudioapi, spelling
covr, devtools, httptest (>= 3.0.0), knitr, rmarkdown,
rstudioapi, spelling, testthat (>= 2.0.0)
covr, devtools, haven, httptest (>= 3.0.0), knitr, magrittr,
miniUI, rmarkdown, rstudioapi, shiny, spelling, testthat (>=
2.0.0)
covr, crunchy, devtools, haven, httptest (>= 3.0.0), knitr,
magrittr, miniUI, rmarkdown, rstudioapi, shiny, spelling,
testthat (>= 2.0.0), withr
covr, crunchy, devtools, haven, httptest (>= 3.0.0), knitr,
lintr, magrittr, miniUI, rmarkdown, rstudioapi, shiny,
spelling, styler, testthat (>= 2.0.0), withr
covr, crunchy, devtools, haven, httptest (>= 3.0.0), knitr,
magrittr, rmarkdown, rstudioapi, spelling, styler, testthat (>=
2.0.0), withr
covr, crunchy, devtools, haven, httptest (>= 3.0.0), knitr,
lintr, magrittr, rmarkdown, rstudioapi, spelling, styler,
testthat (>= 2.0.0), withr
covr, crunchy, devtools, haven, httptest (>= 3.0.0), keyring,
knitr, lintr, magrittr, rmarkdown, rstudioapi, spelling,
styler, testthat (>= 2.0.0), withr
base64enc, covr, crunchy, devtools, haven, httptest (>=
3.0.0), keyring, knitr, lintr, magrittr, mime, rmarkdown,
rstudioapi, spelling, styler, testthat (>= 2.0.0), withr
base64enc, covr, crunchy, devtools, haven, httptest (>=
3.0.0), knitr, lintr, magrittr, mime, rmarkdown, rstudioapi,
spelling, styler, testthat (>= 2.0.0), withr
covr, htmltools, httptest (>= 3.0.0), knitr, rmarkdown,
shinytest, spelling, testthat, withr
testthat, broom, crayon, dplyr, forcats, fs, geojsonio,
ggplot2, glue, gt, knitr, lubridate, magrittr, mapproj,
methods, ncdf4, purrr, readxl, reshape2, rgeos, rmarkdown,
rmapshaper, rstudioapi, stringr, sp, sf, tidyr, zoo
knitr, rmarkdown, testthat, ggraph, igraph
testthat, knitr, rmarkdown, rstudioapi, glue
testthat (>= 3.0.0), knitr, markdown, rmarkdown
BSgenome.Hsapiens.UCSC.hg19, testthat (>= 2.1.0), ggplot2,
knitr, rmarkdown, covr, pkgdown
bit64, fftw, knitr, move, parallel, suncalc
bit64, fftw, knitr, move, parallel, sp, suncalc
bit64, fftw, knitr, move, parallel, rmarkdown, suncalc
animation, bit64, fftw, knitr, move, parallel, parsedate,
rmarkdown, sf, suncalc
animation, bit64, dplyr, fftw, knitr, move, parallel,
parsedate, rmarkdown, sf, suncalc
animation, bit64, dplyr, fftw, knitr, move, parallel,
parsedate, quadprog, rmarkdown, sf, suncalc
phytools, viridis, knitr, rmarkdown, nlme, progress,
graphics, grDevices,
devtools, knitr, rmarkdown, RSQLite (>= 2.1.2), mongolite,
tinytest, R.rsp
devtools, knitr, rmarkdown, RSQLite (>= 2.2.4), mongolite,
tinytest (>= 1.2.1), R.rsp
devtools, knitr, rmarkdown, RSQLite (>= 2.1.2), mongolite,
tinytest (>= 1.2.1), R.rsp
covr, knitr, rmarkdown, testthat (>= 3.0.0), usethis
knitr, testthat, PSM, cts, yuima, shinystan
knitr, testthat, devtools, DEoptim, GGally, shiny
knitr, testthat, devtools, DEoptim, GGally, shiny, gridExtra
knitr, testthat, devtools, DEoptim, tinytex, lme4, GGally,
shiny, gridExtra
knitr, testthat, devtools, DEoptim, tinytex, lme4, GGally,
shiny, gridExtra, quantreg
knitr, testthat, devtools, DEoptim, tinytex, lme4, GGally,
shiny, gridExtra, arules
knitr, testthat, devtools, DEoptim, tinytex, lme4, shiny,
gridExtra, arules
testthat, knitr, mvtnorm, R2Cuba, benchr
testthat, knitr, mvtnorm, R2Cuba, microbenchmark
testthat, knitr, mvtnorm, benchr, rmarkdown
rmarkdown, knitr, testthat (>= 3.0.0), rmapshaper, ozmaps,
GGally, rnoaa, ggrepel, ggforce, purrr
rmarkdown, knitr, testthat (>= 3.0.0), rmapshaper, ozmaps,
GGally, ggrepel, ggforce, purrr
rmarkdown, knitr, testthat (>= 3.0.0), ozmaps, GGally,
ggrepel, ggforce, purrr, stars, units, leaflet, plotly,
crosstalk, concaveman, colorspace, vdiffr
callr, glmnet, MASS, magrittr, mlbench, purrr, reticulate,
testthat, xgboost
MASS, mlbench, purrr, reticulate, testthat, xgboost
testthat, knitr, jsonlite, rmarkdown, magrittr
testthat (>= 1.0.0), knitr, jsonlite, rmarkdown, magrittr
testthat (>= 1.0.0), knitr, jsonlite, rmarkdown, magrittr,
httpuv, webutils
spelling, testthat (>= 1.0.0), knitr, jsonlite, rmarkdown,
magrittr, httpuv, webutils
spelling, testthat (>= 1.0.0), knitr, jsonlite, rmarkdown,
magrittr, httpuv (>= 1.4.4), webutils
askpass, spelling, testthat (>= 1.0.0), knitr, jsonlite,
rmarkdown, magrittr, httpuv (>= 1.4.4), webutils
covr, forcats, datasets, dbplyr, testthat, testextra, DBI,
RSQLite
covr, testthat, ggplot2, knitr, rmarkdown, vdiffr, gdtools
covr, testthat, ggplot2, knitr, rmarkdown, vdiffr, gdtools,
magrittr, dplyr
covr, testthat, ggplot2, knitr, rmarkdown, vdiffr, gdtools,
magrittr, dplyr, FSelectorRcpp, klaR, stringr, cowplot, png
testthat, knitr, dplyr, ggplot2, rmarkdown
covr, dplyr, knitr, rmarkdown, testthat (>= 3.0.0), tibble
future, future.apply, MASS, testthat, knitr, rmarkdown, covr,
spelling
geepack, lattice, knitr, rmarkdown, pkgdown
knitr, ggplot2, rmarkdown, testthat, tidyverse, ggbeeswarm,
covr
knitr, ggplot2, rmarkdown, testthat, dplyr, tidyr,
ggbeeswarm, covr
knitr, groupdata2 (>= 1.1), e1071, rmarkdown, testthat, AUC,
furrr, ModelMetrics
knitr, groupdata2 (>= 1.1.1), e1071, rmarkdown, testthat,
AUC, furrr, ModelMetrics
knitr, groupdata2 (>= 1.1.1), e1071, rmarkdown, testthat,
AUC, furrr, ModelMetrics, covr
knitr, groupdata2 (>= 1.1.1), e1071, rmarkdown, testthat,
AUC, furrr, ModelMetrics, covr, nnet
doParallel, gbm, glmnet, knitr, Matrix, parallel, pls,
rmarkdown, testthat
tm (>= 0.7.3), knitr, tokenizers (>= 0.2.1), tidytext,
SnowballC, janeaustenr, devtools, polmineR, NLP
tm (>= 0.7.3), knitr, tokenizers (>= 0.2.1), tidytext,
SnowballC, janeaustenr, devtools, polmineR, NLP, testthat
tm (>= 0.7.3), knitr, tokenizers (>= 0.2.1), tidytext,
SnowballC, janeaustenr, devtools, polmineR, NLP, testthat,
usethis, rmarkdown
tm (>= 0.7.3), knitr, tokenizers (>= 0.2.1), tidytext,
SnowballC, janeaustenr, devtools, NLP, testthat, usethis,
rmarkdown
tm (>= 0.7.3), knitr, tokenizers (>= 0.2.1), tidytext,
SnowballC, janeaustenr, devtools, NLP, testthat, usethis,
rmarkdown, openNLP, aws.s3
tm (>= 0.7.3), knitr, tokenizers (>= 0.2.1), tidytext,
SnowballC, janeaustenr, NLP, testthat, rmarkdown, openNLP,
aws.s3
tm (>= 0.7.3), knitr, markdown, tokenizers (>= 0.2.1),
tidytext, SnowballC, janeaustenr, NLP, testthat, rmarkdown,
openNLP, aws.s3
tm (>= 0.7.3), knitr, markdown, tokenizers (>= 0.2.1),
tidytext, SnowballC, janeaustenr, testthat, rmarkdown, aws.s3
ggplot2, tidyr, dplyr, magrittr, knitr, stringr, rmarkdown,
testthat (>= 0.8.0), BB, ucminf, dfoptim, minqa, hydroPSO,
GenSA, DEoptimR, nloptr
dplyr, magrittr, knitr, rmarkdown, tidyr
ggplot2, XML, raster, pspline, minpack.lm, knitr, rmarkdown
XML, raster, pspline, minpack.lm, changepoint, knitr,
rmarkdown
xml2, raster, pspline, minpack.lm, changepoint, knitr,
rmarkdown, RCurl, parallel
changepoint, minpack.lm, RCurl, raster, pspline, knitr,
rmarkdown, testthat
changepoint, minpack.lm, RCurl, raster, pspline, leaflet,
knitr, rmarkdown
RUnit, knitr, rmarkdown, markdown, BiocStyle
dplyr, reshape2, bodenmiller, knitr, rmarkdown
testthat, rmarkdown, ggplot2, scales, knitr, covr
covr, jsonlite, listviewer, purrr, testthat
httr, jsonlite, listviewer, purrr, testthat
MASS, rPython, deSolve, rootSolve, pander, knitr, rmarkdown
MASS, reticulate, pander, knitr, rmarkdown
knitr, rmarkdown, tufte, testthat, vdiffr
MASS, multigroup, knitr, markdown, rmarkdown
knitr, base64enc (>= 0.1-3), lavaan, testthat
knitr, base64enc (>= 0.1-3), lavaan, testthat, markdown
knitr, base64enc (>= 0.1-3), testthat, markdown, rmarkdown,
lavaan
covr, dplyr, knitr, ngram, qpdf, rmarkdown, sodium, testthat
(>= 3.0.0), usethis, utils
covr, knitr, testthat (>= 3.0.0), codemetar
rmarkdown, rjags, nimble, knitr, ggplot2, parallel, dclone
testthat, lintr, knitr, rmarkdown, kableExtra
ggplot2, maps, mapproj, testthat, knitr, rmarkdown
anytime, data.table, zoo, xts, TTR, quantmod
anytime, data.table, zoo, xts, TTR, quantmod, rtweet
testthat (>= 2.1.0), knitr, rmarkdown, purrr, dplyr, ggplot2,
kableExtra
foreach, doRNG, NeuralNetTools, gputools, testthat, plyr (>=
1.8.3.9000)
knitr, rmarkdown, rgl, parallel, doParallel, data.table,
reshape2, pca3d, dismo, pegas, directlabels, plotly, rgdal,
leaflet.minicharts, leaflet, rrBLUP, poppr, Rcpp, igraph,
qvalue, gdistance, seqinr, pheatmap, RColorBrewer
knitr, rmarkdown, rgl, parallel, doParallel, data.table,
reshape2, pca3d, dismo, pegas, directlabels, rgdal,
leaflet.minicharts, leaflet, rrBLUP, poppr, Rcpp, igraph,
qvalue, gdistance, seqinr, pheatmap, RColorBrewer, gplots,
vcfR, mmod, plotly, ggthemes, ggrepel
knitr, rmarkdown, rgl, parallel, doParallel, data.table,
reshape2, pca3d, dismo, pegas, directlabels, rgdal,
leaflet.minicharts, leaflet, rrBLUP, poppr, Rcpp, igraph,
qvalue, gdistance, seqinr, pheatmap, RColorBrewer, gplots,
vcfR, mmod, plotly, ggthemes, ggrepel, raster
HardyWeinberg, networkD3, tidyverse, knitr, rmarkdown, rgl,
parallel, doParallel, pca3d, dismo, pegas, directlabels, rgdal,
leaflet.minicharts, leaflet, rrBLUP, poppr, Rcpp, igraph,
qvalue, gdistance, seqinr, pheatmap, gplots, vcfR, mmod,
plotly, ggthemes, ggrepel, ggtern, markdown, RColorBrewer,
scales, SIBER, snpStats, boot, hierfstat, shinyBS, shinythemes,
shinyjs, gganimate, devtools, tibble, stringi, shinyWidgets,
purrr
boot, devtools, directlabels, dismo, doParallel, expm,
gdistance, gganimate, ggrepel, ggtern, ggthemes, gplots,
HardyWeinberg, hierfstat, igraph, iterpc, knitr,
label.switching, leaflet, leaflet.minicharts, markdown, mmod,
networkD3, parallel, pca3d, pegas, pheatmap, plotly, poppr,
proxy, purrr, qvalue, RColorBrewer, Rcpp, rgl, rmarkdown,
rrBLUP, scales, seqinr, shinyBS, shinyjs, shinythemes,
shinyWidgets, SIBER, snpStats, stringi, terra, tibble,
tidyverse, vcfR
dash, dashHtmlComponents, jsonlite, plotly, knitr, rmarkdown
testthat, lintr, knitr, rmarkdown, glue, covr
lintr, knitr, microbenchmark, nycflights13, rmarkdown,
testthat
lintr, knitr, rbenchmark, nycflights13, rmarkdown, testthat
dplyr, lintr, knitr, rbenchmark, nycflights13, rmarkdown,
testthat, tibble
bit64, knitr, chron, ggplot2 (>= 0.9.0), plyr, reshape,
reshape2, testthat (>= 0.4), hexbin, fastmatch, nlme, xts,
gdata, GenomicRanges, caret, curl, zoo, plm, rmarkdown,
parallel
bit64, knitr, nanotime, chron, ggplot2 (>= 0.9.0), plyr,
reshape, reshape2, testthat (>= 0.4), hexbin, fastmatch, nlme,
xts, gdata, GenomicRanges, caret, curl, zoo, plm, rmarkdown,
parallel
bit64, curl, knitr, xts, nanotime, zoo, chron, reshape2,
testthat (>= 0.4)
bit64, curl, knitr, xts, nanotime, zoo, reshape2, testthat
(>= 0.4)
bit64, curl, knitr, xts, nanotime, zoo, reshape2
bit64, curl, R.utils, knitr, xts, nanotime, zoo
bit64, curl, R.utils, knitr, xts, nanotime, zoo, yaml
bit64, curl, R.utils, xts, nanotime, zoo, yaml, knitr,
rmarkdown
bit64 (>= 4.0.0), bit (>= 4.0.4), curl, R.utils, xts,
nanotime, zoo (>= 1.8-1), yaml, knitr, rmarkdown
chron, ggplot2, plyr, testthat (>= 0.4), hexbin
chron, ggplot2, plyr, reshape, testthat (>= 0.4), hexbin
chron, ggplot2 (>= 0.9.0), plyr, reshape, testthat (>= 0.4),
hexbin, fastmatch, nlme
chron, ggplot2 (>= 0.9.0), plyr, reshape, testthat (>= 0.4),
hexbin, fastmatch, nlme, xts, bit64
chron, ggplot2 (>= 0.9.0), plyr, reshape, testthat (>= 0.4),
hexbin, fastmatch, nlme, xts
ggplot2 (>= 0.9.0), plyr, reshape, testthat (>= 0.4), hexbin,
fastmatch, nlme, xts, bit64
ggplot2 (>= 0.9.0), plyr, reshape, reshape2, testthat (>=
0.4), hexbin, fastmatch, nlme, xts, bit64, gdata,
GenomicRanges, caret, knitr, curl, zoo, plm
testthat, knitr, ape, networkD3, yaml, jsonlite, DiagrammeR,
igraph, treemap, curl, doParallel, foreach, htmlwidgets
graphics, testthat, knitr, ape, networkD3, yaml, jsonlite,
DiagrammeR, igraph, treemap, doParallel, foreach, htmlwidgets
graphics, testthat, knitr, ape, yaml, networkD3, jsonlite,
igraph, treemap, doParallel, foreach, htmlwidgets
Formula, graphics, testthat, knitr, ape, yaml, networkD3,
jsonlite, igraph, treemap, doParallel, party, partykit, foreach
Formula, graphics, testthat, knitr, ape, yaml, networkD3,
jsonlite, igraph, treemap, party, partykit, doParallel,
foreach, htmlwidgets
Formula, graphics, testthat, knitr, rmarkdown, ape, yaml,
networkD3, jsonlite, treemap, party, partykit, doParallel,
foreach, htmlwidgets, DiagrammeR (>= 1.0.0), mockery, rpart
Formula, graphics, testthat, knitr, rmarkdown, ape, yaml,
networkD3, jsonlite, igraph, treemap, party, partykit,
doParallel, foreach, htmlwidgets
covr, knitr, lintr, readr, rmarkdown, testthat (>= 2.0.0)
testthat, data.table, tibble, bit64, rmarkdown, titanic
knitr, rmarkdown, kableExtra, pander, testthat
knitr, rmarkdown, kableExtra, pander, testthat (>= 2.0.0)
covr, dplyr, ggplot2, DT, gridExtra, knitr, rmarkdown, sf,
testthat
assertr, knitr, magrittr, rmarkdown, testthat
assertr, knitr, nycflights13, rmarkdown, testthat
knitr, nycflights13, rmarkdown, tibble, testthat
testthat (>= 0.11.0), roxygen2 (>= 5.0.1), Rhipe, lattice
doParallel, foreach, testthat, diagram, knitr
doParallel, foreach, testthat (>= 1.0.2), diagram, knitr
doParallel, foreach, testthat (>= 1.0.2), diagram, knitr,
rmarkdown, pander, tidyverse
doParallel, foreach, testthat (>= 1.0.2), diagram, knitr,
rmarkdown, pander, dplyr, tidyr (>= 1.0), purrr
rmarkdown, knitr, testthat, lubridate, xml2
shiny, knitr, rmarkdown, RColorBrewer, countrycode, dplyr
testthat, knitr, MASS, rmarkdown, validate
jsonlite, knitr, MASS, rmarkdown, testthat, validate
bslib, jsonlite, knitr, MASS, rmarkdown, testthat, validate
knitr, testthat, digest, openssl (>= 0.9.3)
knitr, rmarkdown, testthat, digest, openssl (>= 0.9.3)
knitr, rmarkdown, testthat, digest, openssl (>= 0.9.3), xml2
testthat, knitr, httr, igraph, rmarkdown
testthat (>= 3.0.0), knitr, httr, igraph, rmarkdown
covr, curl, data.table, DBI, devtools, foreach, httptest,
knitr, rmarkdown, RSQLite, testthat
tibble (>= 1.2), testthat, knitr, rmarkdown
tibble (>= 1.2), testthat, knitr, rmarkdown, covr
tibble (>= 1.2), testthat, knitr, rmarkdown, utils, covr,
data.table
cowplot (>= 0.9.4), anytime, digest, DT (>= 0.15),
flexdashboard, htmltools, knitr, rmarkdown, rstudioapi,
testthat (>= 2.3.2), tibble, markdown, vdiffr, parallel
htmltools, rmarkdown, knitr, DT (>= 0.15), digest,
flexdashboard, anytime, patchwork, rstudioapi, testthat (>=
2.3.2), tibble, vdiffr
anytime, digest, DT (>= 0.15), flexdashboard, htmltools,
knitr, patchwork, rmarkdown, rstudioapi, testthat (>= 2.3.2),
tibble, vdiffr
cowplot (>= 0.9.4), anytime, digest, DT (>= 0.15),
flexdashboard, htmltools, knitr, rmarkdown, rstudioapi,
testthat (>= 2.3.2), tibble, vdiffr
knitr, testthat, lintr, stubthat, data.table, car, MASS,
mlbench, beanplot, doBy, insuranceData, rmarkdown, ggplot2,
colormap, modelwordcloud
knitr, testthat, lintr, stubthat, data.table, car, MASS,
mlbench, beanplot, doBy, insuranceData, rmarkdown, ggplot2,
colormap, modelwordcloud, withr, memoise, rex
knitr, testthat, lintr, stubthat, data.table, MASS, mlbench,
beanplot, doBy, insuranceData, rmarkdown, ggplot2, colormap,
modelwordcloud, withr, memoise, rex
knitr, testthat, lintr, stubthat, data.table, MASS, mlbench,
beanplot, doBy, insuranceData, rmarkdown, ggplot2,
modelwordcloud, withr, memoise, rex
lubridate, knitr, testthat, lintr, stubthat, data.table,
MASS, mlbench, beanplot, doBy, insuranceData, rmarkdown,
ggplot2, modelwordcloud, withr, memoise
knitr, MASS, testthat, beanplot, mlbench, car, rmarkdown,
insuranceData, doBy, lintr, stubthat
knitr, MASS, testthat, beanplot, mlbench, car, rmarkdown,
insuranceData, doBy, lintr, stubthat, data.table
covr, testthat, knitr, rmarkdown, ggplot2
covr, testthat, knitr, rmarkdown, ggplot2, dplyr
dplyr, ggplot2, knitr, rmarkdown, testthat
testthat, kableExtra, knitr, rmarkdown, servr, listviewer,
maps
testthat, knitr, styler, rmarkdown, lintr
covr, foreign, haven, knitr, purrr, rmarkdown, testthat, UNF,
yaml
covr, haven, knitr, purrr, rmarkdown, testthat, tibble, yaml
covr, foreign, haven, knitr, purrr, rmarkdown, testthat, yaml
covr, foreign, haven, knitr, purrr, rmarkdown, testthat,
tibble, yaml
testthat (>= 3.0.0), withr, sys, aws.s3, tzdb
bayestestR, boot, dplyr, gamm4, ggplot2, lme4, MASS, mclust,
multimode, psych, purrr, rstanarm, see, sjstats, spelling,
testthat (>= 3.0.0)
bayestestR, knitr, boot, dplyr, effectsize, gamm4, ggplot2,
lfe, lme4, MASS, modelbased, parameters, performance, psych,
rstanarm, see, spelling, testthat (>= 3.0.0), tidyr, rmarkdown
bayestestR, boot, dplyr, effectsize, gamm4, ggplot2, knitr,
lfe, lme4, MASS, modelbased, parameters, performance, poorman,
psych, rmarkdown, rstanarm, see, spelling, testthat (>= 3.0.0),
tidyr
bayestestR, boot, effectsize, gamm4, ggplot2, knitr, lme4,
MASS, modelbased, parameters, poorman, psych, rmarkdown,
rstanarm, see, spelling, testthat (>= 3.0.0)
bayestestR, biglm, boot, brms, data.table, effectsize, gamm4,
ggplot2, haven, httr, knitr, lme4, MASS, mediation, modelbased,
parameters, poorman, psych, readxl, readr, rio, rmarkdown,
rstanarm, see, spelling, testthat (>= 3.0.0)
bayestestR, boot, brms, data.table, dplyr, effectsize, gamm4,
ggplot2, haven, httr, knitr, lme4, mediation, parameters,
poorman, psych, readxl, readr, rio, rmarkdown, rstanarm, see,
testthat (>= 3.0.0), tidyr, withr
bayestestR, boot, brms, data.table, dplyr, effectsize, gamm4,
ggplot2, haven, httr, knitr, lme4, mediation, parameters,
poorman (>= 0.2.6), psych, readxl, readr, rio, rmarkdown,
rstanarm, see, testthat (>= 3.1.0), tidyr, withr
bayestestR, boot, brms, data.table, dplyr, effectsize, gamm4,
ggplot2, haven, htmltools, httr, knitr, lme4, mediation,
parameters, poorman (>= 0.2.6), psych, readxl, readr, rio,
rmarkdown, rstanarm, see, testthat (>= 3.1.0), tidyr, withr
bayestestR, boot, brms, data.table, dplyr (>= 1.0),
effectsize, gamm4, ggplot2, haven, htmltools, httr, knitr,
lme4, mediation, parameters, poorman (>= 0.2.6), psych, readxl,
readr, rio, rmarkdown, rstanarm, see, testthat (>= 3.1.0),
tidyr, withr
bayestestR, boot, brms, data.table, dplyr (>= 1.0),
effectsize, gamm4, ggplot2, gt, haven, htmltools, httr, knitr,
lme4, mediation, parameters, poorman (>= 0.2.6), psych, readxl,
readr, rio, rmarkdown, rstanarm, see, testthat (>= 3.1.0),
tidyr, withr
rmarkdown, knitr, testthat (>= 3.0.0), spelling, withr
DT, htmltools, knitr, readxl, rmarkdown, shiny, shinytest,
spelling, testthat (>= 3.0.0), withr
DT, htmltools, knitr, readxl, rmarkdown, shiny, shinytest,
spelling, testthat (>= 3.0.0), withr, parsedate, readr
testthat, knitr, rmarkdown, usethis, devtools, covr, msa,
Biostrings
babynames, fueleconomy, nycflights13, nasaweather, Lahman,
ggplot2, gapminder, forcats, tidyr, testthat (>= 2.1.0), covr
covr, devtools, dplyr, forcats, ggplot2, ggridges, knitr,
readxl, reshape2, rmarkdown, stringr, testthat
rgeos, rgdal, ncdf4, knitr, rmarkdown, covr, testthat
ggplot2, dplyr, rgeos, rgdal, ncdf4, knitr, rmarkdown, covr,
testthat
ggplot2, dplyr, rgdal, ncdf4, knitr, markdown, rmarkdown,
covr, testthat
RSQLite, duckdb, bigrquery, testthat (>= 3.0.0)
dbplyr(>= 1.2.0), testthat, ggplot2, tidyr
dbplyr (>= 1.2.0), testthat, tidyr, covr
dbplyr (>= 1.4.0), testthat, tidyr, covr
covr, knitr, Lahman (>= 3.0-1), nycflights13, rmarkdown,
RSQLite (>= 1.0.0), RMySQL, RPostgreSQL, testthat
bit64, covr, knitr, Lahman (>= 5.0.0), nycflights13 (>=
0.2.2), rmarkdown, RMariaDB (>= 1.0.2), RMySQL (>= 0.10.11),
RPostgreSQL (>= 0.4.1), RSQLite (>= 2.0), testthat (>= 2.0.0)
bit64, covr, knitr, Lahman (>= 5.0.0), nycflights13 (>=
0.2.2), rmarkdown, RMariaDB (>= 1.0.2), RMySQL (>= 0.10.11),
RPostgreSQL (>= 0.4.1), RSQLite (>= 2.0), testthat (>= 2.0.0),
withr
bit64, covr, knitr, Lahman, nycflights13, RMariaDB (>=
1.0.2), rmarkdown, RMySQL (>= 0.10.11), RPostgreSQL (>= 0.4.1),
RSQLite (>= 2.1.0), testthat (>= 2.0.0), withr (>= 2.1.2)
bit64, covr, knitr, Lahman, nycflights13, RMariaDB (>=
1.0.2), rmarkdown, RPostgres (>= 1.1.3), RSQLite (>= 2.1.0),
testthat (>= 2.0.0)
bit64, covr, knitr, Lahman, nycflights13, odbc, RMariaDB (>=
1.0.2), rmarkdown, RPostgres (>= 1.1.3), RSQLite (>= 2.1.0),
testthat (>= 2.0.0)
bit64, covr, knitr, Lahman, nycflights13, odbc, RMariaDB (>=
1.0.2), rmarkdown, RPostgres (>= 1.1.3), RPostgreSQL, RSQLite
(>= 2.1.0), testthat (>= 3.0.0)
bit64, covr, knitr, Lahman, nycflights13, odbc, RMariaDB (>=
1.0.2), rmarkdown, RPostgres (>= 1.1.3), RPostgreSQL, RSQLite
(>= 2.1.0), testthat (>= 3.0.0), tidyr
bit64, covr, knitr, Lahman, nycflights13, odbc, RMariaDB (>=
1.0.2), rmarkdown, RPostgres (>= 1.1.3), RPostgreSQL, RSQLite
(>= 2.1.0), testthat (>= 3.0.2), tidyr
bit64, covr, knitr, Lahman, nycflights13, odbc, RMariaDB (>=
1.0.2), rmarkdown, RPostgres (>= 1.1.3), RPostgreSQL, RSQLite
(>= 2.1.0), testthat (>= 3.0.2), tidyr (>= 1.2.0)
fpc, microbenchmark, testthat, dendextend, igraph, knitr
fpc, microbenchmark, testthat, dendextend, igraph, knitr,
rmarkdown
fpc, microbenchmark, testthat, dendextend, igraph, knitr,
DMwR
fpc, microbenchmark, testthat, dendextend, igraph, knitr,
rmarkdown, DMwR
testthat (>= 1.0.2), urltools (>= 1.7.0), RSQLite (>= 1.1-2),
RMariaDB, RMySQL, RPostgres, RPostgreSQL, dplyr (>= 0.5.0)
testthat (>= 1.0.2), urltools (>= 1.7.0), RSQLite (>= 1.1-2),
RMariaDB, RMySQL, RPostgres, RPostgreSQL, hms, jsonlite, blob
testthat (>= 1.0.2), urltools (>= 1.7.0), RSQLite (>= 1.1-2),
RMariaDB, RMySQL, RPostgres, RPostgreSQL, hms, jsonlite, blob,
odbc
testthat (>= 1.0.2), urltools (>= 1.7.0), RSQLite (>= 2.1.2),
RMariaDB, RMySQL (>= 0.10.20), RPostgres, RPostgreSQL, hms,
jsonlite, blob, odbc
covr, rmarkdown (>= 1.16.2), testthat, withr
covr, jsonlite, jsonvalidate, rmarkdown (>= 1.16.2), stringr,
testthat, withr
bitops, minpack.lm, multicore, splines, XML
bitops, minpack.lm, splines, XML, oro.dicom
bitops, minpack.lm, splines, XML, oro.dicom (>= 0.3.7)
bitops, minpack.lm, splines, XML, oro.dicom (>= 0.4.3),
testthat
MASS, rjags (>= 3-5), rlecuyer, rsprng, BRugs
MASS, lattice, rjags (>= 3-5), snow, rlecuyer
MASS, lattice, rjags (>= 3-5), R2WinBUGS, R2OpenBUGS, BRugs,
snow, rlecuyer
MASS, lattice, R2WinBUGS, R2OpenBUGS, BRugs, rlecuyer
testthat (>= 3.0.0), RSQLite, covr, knitr, rmarkdown
deSolve, knitr, microbenchmark, rmarkdown, testthat
ggExtra (>= 0.3.0), graphics, grid (>= 3.2.2), gridExtra (>=
2.0.0), knitr (>= 1.7), rmarkdown, stats, testthat (>= 0.9.1),
utils
ggExtra (>= 0.3.0), graphics, grid (>= 3.2.2), gridExtra (>=
2.0.0), knitr (>= 1.7), rmarkdown, stats, testthat (>= 0.11.0),
utils
testthat, knitr, rmarkdown, devtools, R.rsp, microbenchmark,
beanplot
testthat, knitr, rmarkdown, devtools, R.rsp, beanplot
covr, testthat, knitr, oz, rmarkdown, spelling
knitr, rmarkdown, testthat, rprojroot, sf, scales
knitr, rmarkdown, testthat, rprojroot, sf, scales,
RColorBrewer
admisc, covr, haven, knitr, labelled, pillar, rmarkdown,
spelling, testthat (>= 3.0.0), tibble, vctrs, vroom
dplyr, DT, testthat, knitr, rmarkdown, tidyr
dplyr, DT, testthat, knitr, rmarkdown, tidyr, webshot
rmarkdown, knitr, kableExtra, magrittr, testthat (>= 3.0.0)
BiocManager, shiny, shinycssloaders, covr, devtools, knitr,
miniCRAN, plyr, rmarkdown, spelling, stringi, testthat (>=
2.1.0)
BiocManager, shiny, shinycssloaders, covr, devtools, knitr,
miniCRAN, plyr, rmarkdown, spelling, stringi, testthat (>=
2.1.0), vcr
BiocManager, covr, devtools, ggplot2, ggraph, graphlayouts,
igraph, knitr, miniCRAN, plyr, rmarkdown, scales, shiny,
shinycssloaders, spelling, stringi, testthat (>= 2.1.0), vcr
covr, kableExtra, knitr, rmarkdown, stringr, testthat
tidyverse, divDyn, gsloid, phytools, paleotree, ggforce,
dispRity, ggtree
tidyverse, divDyn, gsloid, phytools, paleotree, dispRity,
ggtree, testthat (>= 3.0.0), vdiffr (>= 1.0.0),
tidyverse, divDyn, gsloid, ape, phytools, paleotree,
dispRity, ggtree, testthat (>= 3.0.0), vdiffr (>= 1.0.0),
testthat, knitr, ordinal, tram, cotram, covr
knitr, rmarkdown, magrittr, testthat (>= 3.0.0),
cimir, dplyr, knitr, testthat (>= 3.0.0), tidyr, units
DiagrammeR, lattice, roxygen2, protViz (>= 0.2.45), shiny,
testthat, knitr, rmarkdown
DiagrammeR, lattice, roxygen2, protViz (>= 0.4.0), shiny,
testthat, knitr, rmarkdown
doParallel (>= 1.0.11), knitr, rmarkdown, testthat (>=
3.0.0), vdiffr
cshapes, sf, states (>= 0.3.0), knitr, ggplot2, rmarkdown,
rnaturalearth, rnaturalearthdata, rgeos, kableExtra, lubridate,
haven, readxl, ggrepel, png, testthat (>= 3.0.0), vdiffr,
compare, magrittr, devtools
knitr, testthat, plyr, profdpm, microbenchmark, colorspace,
DendSer,labeltodendro,dendroextras, dynamicTreeCut, ggdendro
dendextendRcpp (>= 0.5.0), knitr, testthat, plyr, profdpm,
microbenchmark, colorspace, gplots,
DendSer,labeltodendro,dendroextras, dynamicTreeCut, ggdendro
dendextendRcpp (>= 0.5.0), knitr, testthat, colorspace, plyr,
profdpm, microbenchmark, gplots, DendSer, dynamicTreeCut,
pvclust
dendextendRcpp (>= 0.5.0), knitr, testthat, colorspace,
ggplot2, plyr, ape, profdpm, microbenchmark, gplots, DendSer,
dynamicTreeCut, pvclust
dendextendRcpp (>= 0.5.0), knitr, testthat, colorspace,
ggplot2, plyr, ape, profdpm, microbenchmark, gplots, d3heatmap,
dynamicTreeCut, pvclust, corrplot, DendSer, MASS, cluster, covr
dendextendRcpp (>= 0.5.0), knitr, testthat, colorspace,
ggplot2, plyr, ape, profdpm, microbenchmark, gplots, NMF,
d3heatmap, dynamicTreeCut, pvclust, corrplot, DendSer, MASS,
cluster, circlize (>= 0.2.5), covr
dendextendRcpp (>= 0.5.0), knitr, rmarkdown, testthat,
colorspace, ggplot2, plyr, ape, profdpm, microbenchmark,
gplots, NMF, d3heatmap, dynamicTreeCut, pvclust, corrplot,
DendSer, MASS, cluster, circlize (>= 0.2.5), covr
knitr, rmarkdown, testthat, seriation, colorspace, plyr, ape,
profdpm, microbenchmark, gplots, heatmaply, d3heatmap,
dynamicTreeCut, pvclust, corrplot, DendSer, MASS, cluster,
circlize (>= 0.2.5), covr
knitr, rmarkdown, testthat, seriation, colorspace, ape,
profdpm, microbenchmark, gplots, heatmaply, d3heatmap,
dynamicTreeCut, pvclust, corrplot, DendSer, MASS, cluster, fpc,
circlize (>= 0.2.5), covr
knitr, rmarkdown, testthat, seriation, colorspace, ape,
microbenchmark, gplots, heatmaply, d3heatmap, dynamicTreeCut,
pvclust, corrplot, DendSer, MASS, cluster, fpc, circlize (>=
0.2.5), covr
knitr, rmarkdown, testthat, seriation, colorspace, ape,
microbenchmark, gplots, heatmaply, dynamicTreeCut, pvclust,
corrplot, DendSer, MASS, cluster, fpc, circlize (>= 0.2.5),
covr
dendextendRcpp (>= 0.5.0), knitr, rmarkdown, testthat,
seriation, colorspace, plyr, ape, profdpm, microbenchmark,
gplots, NMF, heatmaply, d3heatmap, dynamicTreeCut, pvclust,
corrplot, DendSer, MASS, cluster, circlize (>= 0.2.5), covr
knitr, rmarkdown, testthat, seriation, colorspace, plyr, ape,
profdpm, microbenchmark, gplots, NMF, heatmaply, d3heatmap,
dynamicTreeCut, pvclust, corrplot, DendSer, MASS, cluster,
circlize (>= 0.2.5), covr
knitr, RColorBrewer, gplots, heatmap.plus, seriation
knitr, RColorBrewer, gplots, heatmap.plus, seriation, gapmap
knitr, RColorBrewer, gplots, seriation, gapmap, rmarkdown
pbapply, mgcv, knitr, rmarkdown, testthat
graphics, knitr, mvtnorm, rmarkdown, stats
graphics, knitr, mvtnorm, rmarkdown, stats, testthat
data.table, testthat, usethis, devtools, roxygen2, jsonlite,
ggplot2, cowplot, directlabels, rmarkdown, knitr
covr (>= 3.1.0), rms (>= 5.1.2), spelling, survival, testthat
(>= 2.1.0), withr
covr (>= 3.1.0), spelling, survival, testthat (>= 3.0.0),
withr
highlight, markdown, knitr, rmarkdown, ggplot2, dplyr, tidyr
markdown, knitr, rmarkdown, ggplot2, dplyr, tidyr, pander,
bookdown
covr, testthat, whoami, withr, spelling, gh
callr, covr, gh, spelling, testthat, whoami, withr
covr, haven, jsonlite, knitr, lubridate, readr, readxl,
rmarkdown, scales, shinyBS, shinythemes, stringr, testthat,
tools
covr, haven, jsonlite, knitr, lubridate, readr, readxl,
rmarkdown, shinyBS, shinythemes, stringr, testthat, tools,
vdiffr
covr, knitr, rmarkdown, testthat, vdiffr
covr, gridExtra, knitr, rmarkdown, testthat, vdiffr, xplorerr
covr, testthat (>= 3.0.0), shinytest2, globals, knitr,
rmarkdown
covr, testthat (>= 3.0.0), shinytest2, globals, knitr, lintr,
rmarkdown
knitr, rmarkdown, jsonlite, writexl, lmerTest, afex, ggplot2,
gridExtra,
knitr, rmarkdown, tidyverse, jsonlite, writexl
sessioninfo, tibble, knitr, testthat, rmarkdown, covr
sessioninfo, tibble, testthat, rmarkdown, covr
covr, rmarkdown, sessioninfo, testthat, tibble
knitr, metafor (>= 3.4-0), rmarkdown, testthat (>= 3.0.0)
testthat, knitr, rmarkdown, covr, brglm2, AER,
ROI.plugin.ecos, ROI.plugin.glpk, ROI.plugin.neos,
ROI.plugin.alabama
knitr, rmarkdown, covr, brglm2, AER, tinytest,
ROI.plugin.ecos, ROI.plugin.glpk, ROI.plugin.alabama,
ROI.plugin.neos
testthat (>= 3.0.0), crosstalk, shiny, htmltools, knitr,
dplyr, liminal, rmarkdown, geozoo
testthat, knitr, rmarkdown, covr, abind, matrixStats
testthat, knitr, rmarkdown, covr, abind, lattice, pacman,
tidyr, graphics, gridExtra, arrayhelpers, ore (>= 1.4.0),
clipr, styler, MASS, mgcv, spelling
abind, covr, ggplot2, glue (>= 1.3.0), graphics, gridExtra,
knitr, lattice, MASS, matrixStats, mgcv, pacman, rmarkdown,
spelling, testthat, tidyr
abind, covr, ggplot2, glue (>= 1.3.0), graphics, gridExtra,
knitr, lattice, MASS, matrixStats, mgcv, pacman, R.utils,
rmarkdown, spelling, testthat, tidyr
abind, covr, ggplot2, glue (>= 1.3.0), graphics, gridExtra,
knitr, lattice, MASS, matrixStats, mgcv, pacman, R.utils,
rmarkdown, spelling, testthat (>= 3.0), tidyr
testthat, knitr, rmarkdown, covr, abind, lattice, pacman,
tidyr, graphics, gridExtra, arrayhelpers, MASS, mgcv, spelling
abind, arrayhelpers, covr, ggplot2, glue (>= 1.3.0),
graphics, gridExtra, knitr, lattice, MASS, mgcv, pacman,
rmarkdown, spelling, testthat, tidyr
abind, covr, ggplot2, glue (>= 1.3.0), graphics, gridExtra,
knitr, lattice, MASS, mgcv, pacman, rmarkdown, spelling,
testthat, tidyr
knitr, rmarkdown, testthat, minpack.lm (>= 1.2-1)
testthat, roxygen2, BiocInstaller, Rcpp (>= 0.10.0), MASS
curl (>= 0.9), testthat (>= 0.7), BiocInstaller, Rcpp (>=
0.10.0), MASS, rmarkdown, knitr, lintr (>= 0.2.1), bitops,
roxygen2 (>= 5.0.0), evaluate, rversions
curl (>= 0.9), crayon, testthat (>= 0.7), BiocInstaller, Rcpp
(>= 0.10.0), MASS, rmarkdown, knitr, hunspell (>= 1.2), lintr
(>= 0.2.1), bitops, roxygen2 (>= 5.0.0), evaluate, rversions,
covr, gmailr (> 0.7.0)
curl (>= 0.9), crayon, testthat (>= 1.0.2), BiocInstaller,
Rcpp (>= 0.10.0), MASS, rmarkdown, knitr, hunspell (>= 2.0),
lintr (>= 0.2.1), bitops, roxygen2 (>= 5.0.0), evaluate,
rversions, covr, gmailr (> 0.7.0)
testthat, roxygen2, BiocInstaller, Rcpp (>= 0.10.0), MASS,
knitr
testthat (>= 0.7), roxygen2, BiocInstaller, Rcpp (>= 0.10.0),
MASS, knitr
testthat (>= 0.7), roxygen2, BiocInstaller, Rcpp (>= 0.10.0),
MASS, knitr, rstudio
testthat (>= 0.7), roxygen2 (>= 3.0.0), BiocInstaller, Rcpp
(>= 0.10.0), MASS, knitr, rstudioapi
testthat (>= 0.7), roxygen2 (>= 4.0.2), BiocInstaller, Rcpp
(>= 0.10.0), MASS, rmarkdown, knitr
testthat (>= 0.7), BiocInstaller, Rcpp (>= 0.10.0), MASS,
rmarkdown, knitr, lintr
testthat (>= 0.7), BiocInstaller, Rcpp (>= 0.10.0), MASS,
rmarkdown, knitr, lintr (>= 0.2.1)
testthat (>= 0.7), BiocInstaller, Rcpp (>= 0.10.0), MASS,
rmarkdown, knitr, lintr (>= 0.2.1), bitops
BiocInstaller, BiocManager, bitops, covr (>= 3.2.0), crayon,
curl (>= 0.9), evaluate, foghorn (>= 1.0.1), gmailr (> 0.7.0),
knitr, lintr (>= 0.2.1), mockery, pingr, MASS, pkgdown, Rcpp
(>= 0.10.0), rhub, rmarkdown, roxygen2 (>= 6.1.0), rversions,
spelling (>= 1.1), testthat (>= 1.0.2), whisker
BiocManager, bitops, covr (>= 3.2.0), crayon, curl (>= 0.9),
evaluate, foghorn (>= 1.1.0), gmailr (> 0.7.0), knitr, lintr
(>= 0.2.1), mockery, pingr, MASS, pkgdown, Rcpp (>= 0.10.0),
rhub (>= 1.0.2), rmarkdown, roxygen2 (>= 6.1.0), rversions,
spelling (>= 1.1), testthat (>= 1.0.2), whisker
BiocManager, bitops, covr (>= 3.2.0), crayon, curl (>= 0.9),
evaluate, foghorn (>= 1.1.0), gmailr (> 0.7.0), knitr, lintr
(>= 0.2.1), mockery, pingr, MASS, pkgdown, Rcpp (>= 0.10.0),
rhub (>= 1.0.2), rmarkdown, rversions, spelling (>= 1.1),
whisker
BiocManager, bitops, curl (>= 0.9), evaluate, foghorn (>=
1.1.0), gmailr (> 0.7.0), knitr, lintr (>= 0.2.1), mockery,
pingr, MASS, pkgdown, Rcpp (>= 0.10.0), rhub (>= 1.0.2),
rmarkdown, spelling (>= 1.1), whisker
knitr, rmarkdown, latticeExtra, testthat, calibrate, ggplot2
knitr, rmarkdown, latticeExtra, testthat, calibrate, ggplot2,
Cairo
knitr, rmarkdown, latticeExtra, testthat, ggplot2, Cairo
knitr, rmarkdown, testthat, mirt, ggplot2, Cairo
knitr, psych, sirt, MLCIRTwithin, rmarkdown
iterators, testthat, itertools, mgcv, latex2exp
testthat (>= 2.1.0), sandwich, knitr, rmarkdown, spelling,
formatR
xts, vars, magrittr, testthat (>= 3.0.0), knitr, rmarkdown,
covr
knitr, rmarkdown, maps, mapproj, R.rsp, testthat
knitr, rmarkdown, MASS, R.utils, spelling
covr, dplyr, knitr, pillar, rmarkdown, testthat
covr, dplyr, knitr, pillar, rmarkdown, testthat (>= 2.1.0)
covr, kernlab, knitr, rmarkdown, rpart, testthat, xml2
testthat, knitr, rpart, covr, kernlab, xml2
testthat, knitr, rpart, covr, kernlab, xml2, rmarkdown
covr, kernlab, knitr, rmarkdown, rpart, testthat (>= 3.0.0),
xml2
testthat, knitr, pander, rmarkdown, covr
covr, knitr, pander, rmarkdown, testthat
apcluster, blockcluster, cluster, covr, dbscan, e1071,
kernlab, knitr, kohonen, pander, poLCA, progress, rmarkdown,
Rtsne, sigclust, testthat
apcluster, blockcluster, cluster, covr, dbscan, e1071,
kernlab, knitr, kohonen, pander, poLCA, progress, RColorBrewer,
rmarkdown, Rtsne, sigclust, testthat
apcluster, cluster, covr, dbscan, e1071, kernlab, knitr,
kohonen, pander, poLCA, progress, RColorBrewer, rmarkdown,
Rtsne, sigclust, testthat
apcluster, blockcluster, cluster, covr, dbscan, e1071,
kernlab, knitr, kohonen, pander, poLCA, progress, RColorBrewer,
rlang, rmarkdown, Rtsne, sigclust, testthat
apcluster, cluster, covr, dbscan, e1071, kernlab, knitr,
kohonen, mixedClust, pander, poLCA, progress, RColorBrewer,
rlang, rmarkdown, Rtsne, sigclust, testthat
rmarkdown, knitr, haven, testthat (>= 3.0.0)
Seurat (>= 3.0.0), testthat, knitr, rmarkdown
testthat, lubridate, knitr, rmarkdown, purrr, dplyr, stringi
testthat, lubridate, knitr, rmarkdown, purrr, dplyr, stringi,
stringr, devtools, covr
knitr, cowplot, parallelDist, strex, tidyr, rmarkdown
knitr, rmarkdown, testthat, lintr, igraph
knitr, rmarkdown, testthat, lintr, Matrix
knitr, rmarkdown, testthat (>= 3.0.0), usethis
benford.analysis, BenfordTests, BeyondBenford, knitr,
rmarkdown, testthat
knitr, rmarkdown, BiocParallel, rhdf5, DelayedArray,
DelayedMatrixStats, HDF5Array, testthat
MASS, Matrix, RANN, RSpectra, Rtsne, coRanking, diffusionMap,
energy, fastICA, ggplot2, graphics, igraph, kernlab, lle, loe,
optimx, pcaPP, scales, scatterplot3d, stats, testthat, tidyr,
vegan
MASS, Matrix, RANN, RSpectra, Rtsne, coRanking, diffusionMap,
energy, fastICA, ggplot2, graphics, igraph, kernlab, lle, loe,
optimx, pcaPP, rgl, scales, scatterplot3d, stats, testthat,
tidyr, vegan
cccd, MASS, Matrix, RANN, RSpectra, Rtsne, coRanking,
diffusionMap, energy, fastICA, ggplot2, graphics, igraph,
keras, kernlab, knitr, lle, loe, optimx, pcaL1, pcaPP,
reticulate, rgl, scales, scatterplot3d, stats, tensorflow,
testthat, tidyr, tinytex, umap, vegan
NMF, MASS, Matrix, RANN, RSpectra, Rtsne, cccd, coRanking,
diffusionMap, energy, fastICA, ggplot2, graphics, igraph,
keras, kernlab, knitr, lle, loe, optimx, pcaL1, pcaPP,
reticulate, rgl, scales, scatterplot3d, stats, tensorflow,
testthat, tidyr, tinytex, umap, vegan
NMF, MASS, Matrix, RANN, RSpectra, Rtsne, cccd, coRanking,
diffusionMap, energy, fastICA, ggplot2, graphics, igraph,
keras, kernlab, knitr, loe, optimx, pcaL1, pcaPP, reticulate,
rgl, scales, scatterplot3d, stats, tensorflow, testthat, tidyr,
tinytex, umap, vegan
folio, FactoMineR, ggrepel, khroma, testthat (>= 3.0.0),
vdiffr
covr, folio, FactoMineR, ggrepel, khroma, testthat (>=
3.0.0), vdiffr
covr, folio, FactoMineR, ggrepel, khroma, testthat (>=
3.0.0), vdiffr (>= 1.0.0)
covr, FactoMineR, ggrepel, khroma, testthat (>= 3.0.0),
vdiffr (>= 1.0.0)
ggplot2, knitr, lubridate, rmarkdown, testthat
ggplot2, knitr, lubridate, rmarkdown, testthat, covr
covr, ggplot2, knitr, lubridate, rmarkdown, scales, testthat,
zoo
microbenchmark, knitr, rmarkdown, promises, testthat
microbenchmark, knitr, rmarkdown, RcppRedis, promises,
testthat, magrittr, glue
microbenchmark, knitr, rmarkdown, testthat, promises,
magrittr, glue, qs, RcppRedis
microbenchmark, knitr, rmarkdown, testthat, promises,
magrittr, glue, qs, RcppRedis, future.callr
microbenchmark, htmltools, knitr, rmarkdown, testthat,
promises, magrittr, glue, qs, RcppRedis, future.callr
microbenchmark, htmltools, knitr, rmarkdown, testthat,
promises, magrittr, glue, yaml, qs, RcppRedis, future.callr,
remotes
knitr, rmarkdown, testthat, microbenchmark, magrittr, yaml,
future.callr, remotes, glue
ks, MASS, inlinedocs, quadprog, ggplot2, lattice, alphahull,
ElemStatLearn
ks, MASS, inlinedocs, quadprog, ggplot2, lattice, alphahull,
ElemStatLearn, proto
ks, MASS, inlinedocs, quadprog, ggplot2, lattice, alphahull,
ElemStatLearn, proto, lars, mlmRev, latticeExtra
ks, MASS, inlinedocs, quadprog, ggplot2 (>= 0.9.0), lattice,
alphahull, reshape2, nlme, ElemStatLearn, proto, lars, mlmRev,
latticeExtra
ks, MASS, inlinedocs, quadprog, ggplot2 (>= 0.9.1), lattice,
alphahull, reshape2, nlme, ElemStatLearn, proto, lars, mlmRev,
latticeExtra
MASS, inlinedocs, ggplot2 (>= 0.9.1), lattice, alphahull,
reshape2, nlme, ElemStatLearn, proto, lars, latticeExtra
MASS, inlinedocs, ggplot2 (>= 2.0), lattice, alphahull, nlme,
ElemStatLearn, lars, latticeExtra
MASS, inlinedocs, ggplot2 (>= 2.0), rlang, lattice,
alphahull, nlme, lars, latticeExtra, dplyr
MASS, inlinedocs, ggplot2 (>= 2.0), rlang, lattice,
alphahull, nlme, ElemStatLearn, lars, latticeExtra, dplyr
MASS, inlinedocs, ggplot2 (>= 2.0), rlang, lattice,
alphahull, nlme, lars, latticeExtra, testthat
MASS, knitr, markdown, inlinedocs, RColorBrewer, ggplot2 (>=
2.0), rlang, lattice, alphahull, nlme, lars, latticeExtra,
dplyr, ggthemes, testthat
MASS, knitr, markdown, inlinedocs, ggplot2 (>= 2.0), rlang,
lattice, alphahull, nlme, lars, latticeExtra, dplyr, ggthemes,
testthat
shinytest, testthat (>= 3.0.0), vdiffr (>= 1.0.0)
testthat, INLA, knitr, rmarkdown, SpatialEpi
knitr, rmarkdown, rstantools (>= 2.0.0.9000), tempdisagg,
testthat
Ecdat, pec, survival, randomForest, nnet, VGAM
Matrix, matrixcalc, numDeriv, caret, Ecdat, pec, survival,
randomForest, nnet, VGAM
Matrix, matrixcalc, numDeriv, caret, Ecdat, pec, survival,
nnet
ggplot2, gridExtra, ggdendro, scales, seriation
knitr, ggplot2, gridExtra, ggdendro, scales, seriation,
fwsim, testthat, rmarkdown
knitr, ggplot2, gridExtra, ggdendro, scales, seriation,
fwsim, testthat
rmarkdown, markdown, rticles, knitr, R.rsp, BiocManager,
ggpubr, sna
knitr, dgof, RVAideMemoire, bench, testthat (>= 3.0.0),
rmarkdown
knitr, dgof, cvmdisc, bench, testthat (>= 3.0.0), rmarkdown
testthat, MASS, mda, klaR, earth, mlbench, covr, ggplot2,
xml2, spelling
testthat, MASS, mda, klaR, earth, mlbench, covr, ggplot2,
xml2, spelling, naivebayes
testthat, MASS, mda, klaR, earth, mlbench, covr, ggplot2,
xml2, spelling, naivebayes, modeldata
covr, dplyr, earth, ggplot2, klaR, MASS, mda, mlbench,
modeldata, naivebayes, sda, sparsediscrim (>= 0.3.0), spelling,
testthat, xml2
covr, dplyr, earth, ggplot2, klaR, knitr, MASS, mda, mlbench,
modeldata, naivebayes, rmarkdown, sda, sparsediscrim (>=
0.3.0), spelling, testthat (>= 3.0.0), xml2
knitr, rmarkdown, sf, terra, raster, rgdal, mapview
mgcv, spdep, geostatsp, mapmisc (>= 1.0)
mgcv, spdep, geostatsp, XML, mapmisc (>= 1.0), knitr
spdep, mgcv, geostatsp, mapmisc (>= 1.0), knitr
testthat, knitr, rmarkdown, nycflights13, magrittr, shiny
testthat, knitr, rmarkdown, nycflights13, magrittr, shiny,
LaF, readr, rstudioapi
testthat, knitr, rmarkdown, nycflights13, magrittr, shiny,
LaF, readr, rstudioapi, biglm, speedglm, broom, learnr, ggplot2
testthat (>= 2.1.0), knitr, rmarkdown, nycflights13,
magrittr, shiny, LaF, readr, rstudioapi, biglm, biglmm,
speedglm, broom, learnr, ggplot2
benchmarkme, testthat (>= 2.1.0), knitr, rmarkdown,
nycflights13, magrittr, shiny, LaF, readr, rstudioapi, biglm,
biglmm, speedglm, broom, learnr, ggplot2
testthat (>= 2.1.0), nycflights13, magrittr, shiny, LaF,
readr, rstudioapi, biglm, biglmm, speedglm, broom, ggplot2
testthat (>= 2.1.0), nycflights13, magrittr, shiny, LaF,
readr, rstudioapi, biglm, biglmm, speedglm, broom, ggplot2,
covr
nycflights13, magrittr, shiny, LaF, readr, rstudioapi, biglm,
biglmm, speedglm, broom, ggplot2
rgdal, gbm, splines, XML, ROCR, deldir, gstat, randomForest,
kernlab
rgdal, gbm, splines, XML, ROCR, deldir, gstat, randomForest,
kernlab, maptools
rJava (>= 0.5-0), rgdal, gbm, splines, XML, ROCR, deldir,
gstat, randomForest, kernlab, maptools
rJava (>= 0.5-0), rgdal, rgeos, gbm, splines, XML, ROCR,
deldir, gstat, randomForest, kernlab, maptools
rJava (>= 0.5-0), rgdal, rgeos, XML, ROCR, deldir, gstat,
randomForest, kernlab, maptools, jsonlite, gbm (>= 2.1.1)
rJava (>= 0.9-7), rgdal, rgeos, XML, ROCR, deldir, gstat,
randomForest, kernlab, maptools, jsonlite, gbm (>= 2.1.1)
rJava (>= 0.9-7), terra, rgdal, rgeos, XML, ROCR, deldir,
gstat,randomForest, kernlab, maptools, jsonlite,gbm (>= 2.1.1)
rJava (>= 0.9-7), terra, rgdal, rgeos, XML, ROCR, deldir,
gstat, randomForest, kernlab, maptools, jsonlite, gbm (>=
2.1.1)
rJava (>= 0.9-7), XML, ROCR, deldir, gstat, randomForest,
kernlab, jsonlite, gbm (>= 2.1.1)
devtools, knitr, rmarkdown, roxygen2, testthat, covr, tidyr,
skimr, ggplot2, ggridges, gghalves, furrr, future, foreach,
doParallel, parallel, bench
devtools, knitr, rmarkdown, roxygen2, testthat, covr, tidyr,
skimr, ggplot2, ggridges, furrr, future, foreach, doParallel,
parallel, bench
BBmisc, biomartr, curl, DBI, dplyr, rentrez, reutils,
RSQLite, stats, stringr, seqinr, TmCalculator, utils, XML
knitr, markdown, rmarkdown, SpadeR, vegan
knitr, rmarkdown, randomForest, Cubist, gam, stats
fasterize, knitr, rmarkdown, spData, raster, tinytest
devtools, formatR, kableExtra, magrittr, knitr, rmarkdown
htmlwidgets, r2d3, DiagrammeR, shiny, rsconnect, testthat
htmlwidgets, progress, r2d3, DiagrammeR, shiny, rsconnect,
testthat
htmlwidgets, progress, r2d3, DiagrammeR, shiny, rsconnect,
testthat (>= 3.0.0), withr
covr, DiagrammeR, htmlwidgets, progress, r2d3, rsconnect,
shiny, testthat (>= 3.0.0), withr
distrEx, svUnit (>= 0.7-11), knitr, distrMod, ROptEst
knitr, testthat, devtools, rmarkdown, magrittr, actuar,
remotes
expint, GoFKernel, knitr, testthat, devtools, rmarkdown,
magrittr, extraDistr, actuar, remotes
expint, GoFKernel, knitr, testthat, devtools, rmarkdown,
magrittr, extraDistr, actuar, remotes, pracma
GoFKernel, knitr, testthat, devtools, rmarkdown, magrittr,
extraDistr, actuar, remotes, plotly, pracma
cubature, GoFKernel, knitr, testthat, rmarkdown, magrittr,
extraDistr, actuar, plotly, pracma
actuar, cubature, extraDistr, GoFKernel, knitr, magrittr,
plotly, pracma, R62S3 (>= 1.4.0), rmarkdown, testthat
actuar, cubature, extraDistr, GoFKernel, knitr, plotly,
pracma, R62S3, rmarkdown, testthat
distrEx(>= 0.4-4), distrSim(>= 1.9.0), distrTEst(>= 1.9.0), Biobase
testthat (>= 2.1.0), httr, jsonlite, plumberDeploy, analogsea
(>= 0.9.0)
testthat (>= 2.1.0), covr, mvtnorm, actuar
testthat (>= 2.1.0), covr, mvtnorm, actuar, ggdist
testthat (>= 2.1.0), covr, mvtnorm, actuar (>= 2.0.0), ggdist
covr, cowplot, ggplot2, knitr, rmarkdown, testthat (>= 2.1.0)
covr, cowplot, knitr, revdbayes (>= 1.3.5), rmarkdown,
testthat (>= 2.1.0)
covr, cowplot, knitr, revdbayes (>= 1.3.5), rmarkdown,
testthat (>= 3.0.0)
callr, covr, dplyr, dbplyr, knitr, nycflights13, odbc,
RMariaDB, RPostgres, RPostgreSQL, RSQLite, spelling, withr,
rmarkdown, lintr
callr, covr, dplyr, dbplyr, knitr, nycflights13, odbc,
RMariaDB, RPostgres, RPostgreSQL, RSQLite, spelling, testthat,
withr, rmarkdown, lintr
flexdashboard, knitr, rmarkdown, grid, lattice
knitr, lattice, pander, rmarkdown, tcltk, tinytest
knitr, lattice, pander, rmarkdown, tinytest
xlsx, sendplot, doSNOW, snow, foreach, iterators, doParallel,
parallel
xlsx, sendplot, foreach, iterators, doParallel, parallel
xlsx, sendplot, foreach, iterators, doParallel, parallel,
knitr
xlsx, sendplot, plotrix, foreach, iterators, doParallel,
parallel
xlsx, sendplot, plotrix, parallel, HWxtest
numDeriv, minqa, lubridate, expm, caper, geiger
ggplot2, janitor, knitr, rmarkdown, testthat, covr
phonics, ggplot2, janitor, knitr, rmarkdown, testthat, covr
stringdist, knitr, rmarkdown, testthat, covr
knitr, rmarkdown, testthat, covr, stringdist
mgcv, survival, lme4, gee, geepack, mvmeta
ISLR, nycflights13, randomForest, dbplyr, DBI, RSQLite,
testthat
ISLR, nycflights13, randomForest, dbplyr, DBI, RSQLite,
stringr, testthat
ISLR, nycflights13, DBI, RSQLite, testthat
DBI, classInt, dbplyr, DMwR, forecast, ISLR, nycflights13,
randomForest, rpart, RSQLite, stringr
DBI, classInt, dbplyr, DMwR, forecast (>= 8.3), ISLR,
nycflights13, randomForest, rpart, RSQLite, stringr
DBI, classInt, dbplyr, forecast (>= 8.3), ISLR, nycflights13,
randomForest, rpart, RSQLite
DBI, classInt, dbplyr, forecast (>= 8.3), ISLR, nycflights13,
randomForest, rpart, prettydoc, RSQLite
DBI, classInt, dbplyr, forecast (>= 8.3), ISLR, nycflights13,
randomForest, rpart, prettydoc, RSQLite, ranger, stringi
DBI, classInt, dbplyr, forecast (>= 8.3), funModeling, ISLR,
nycflights13, ppsr, randomForest, rpart, prettydoc, RSQLite,
ranger, stringi
DiagrammeR, DiagrammeRsvg, dbplyr, fansi, knitr,
nycflights13, rmarkdown, RPostgres, rprojroot, RSQLite,
testthat (>= 2.1.0), tidyverse, withr
brio, covr, crayon, dbplyr, DiagrammeR, DiagrammeRsvg,
digest, fansi, keyring, knitr, mockr, nycflights13, odbc,
RMariaDB (>= 1.0.10), rmarkdown, RPostgres, RSQLite, testthat
(>= 2.1.0), tidyverse, withr
brio, covr, crayon, dbplyr, DiagrammeR, DiagrammeRsvg,
digest, duckdb, fansi, keyring, knitr, mockr, nycflights13,
odbc, RMariaDB (>= 1.0.10), rmarkdown, RPostgres, RSQLite,
testthat (>= 2.1.0), tidyverse, withr
brio, crayon, DiagrammeR, DiagrammeRsvg, dbplyr, digest,
fansi, keyring, knitr, nycflights13, odbc, rmarkdown, RMariaDB,
RPostgres, rprojroot, RSQLite, testthat (>= 2.1.0), tidyverse,
withr
brio, crayon, dbplyr, DiagrammeR, DiagrammeRsvg, digest,
fansi, keyring, knitr, nycflights13, odbc, RMariaDB, rmarkdown,
rprojroot, RSQLite, testthat (>= 2.1.0), tidyverse, withr
brio, crayon, dbplyr, DiagrammeR, DiagrammeRsvg, digest,
fansi, keyring, knitr, nycflights13, odbc, RMariaDB, rmarkdown,
RPostgres, rprojroot, RSQLite, testthat (>= 2.1.0), tidyverse,
withr
brio, crayon, dbplyr, DiagrammeR, DiagrammeRsvg, digest,
fansi, keyring, knitr, nycflights13, odbc, RMariaDB, rmarkdown,
RPostgres, RSQLite, testthat (>= 2.1.0), tidyverse, withr
brio, crayon, dbplyr, DiagrammeR, DiagrammeRsvg, digest,
fansi, keyring, knitr, nycflights13, odbc, RMariaDB (>=
1.0.10), rmarkdown, RPostgres, RSQLite, testthat (>= 2.1.0),
tidyverse, withr
brio, crayon, dbplyr, DiagrammeR, DiagrammeRsvg, digest,
fansi, keyring, knitr, mockr, nycflights13, odbc, RMariaDB (>=
1.0.10), rmarkdown, RPostgres, RSQLite, testthat (>= 2.1.0),
tidyverse, withr
brio, covr, crayon, dbplyr, DiagrammeR, DiagrammeRsvg,
digest, duckdb, fansi, keyring, knitr, mockr, nycflights13,
odbc, RMariaDB (>= 1.0.10), rmarkdown, RPostgres, RSQLite,
testthat (>= 3.0.2), tidyverse, withr
brio, covr, crayon, dbplyr, DiagrammeR, DiagrammeRsvg,
digest, duckdb, fansi, keyring, knitr, mockr, nycflights13,
odbc, progress, RMariaDB (>= 1.0.10), rmarkdown, RPostgres,
RSQLite, testthat (>= 3.0.2), tidyverse, withr
pool, brio, covr, crayon, dbplyr, DiagrammeR, DiagrammeRsvg,
digest, duckdb, fansi, keyring, knitr, mockr, nycflights13,
odbc, progress, RMariaDB (>= 1.0.10), rmarkdown, RPostgres,
RSQLite (>= 2.2.8), testthat (>= 3.0.2), tidyverse, withr
brio, covr, crayon, dbplyr, DiagrammeR, DiagrammeRsvg,
digest, duckdb, fansi, keyring, knitr, mockr, nycflights13,
odbc, pool, progress, RMariaDB (>= 1.0.10), rmarkdown,
RPostgres, RSQLite (>= 2.2.8), testthat (>= 3.0.2), tidyverse,
waldo, withr
brio, covr, crayon, dbplyr, DiagrammeR, DiagrammeRsvg,
digest, duckdb, fansi, keyring, knitr, mockr, nycflights13,
odbc, pixarfilms, pool, progress, RMariaDB (>= 1.0.10),
rmarkdown, RPostgres, RSQLite (>= 2.2.8), testthat (>= 3.0.2),
tidyverse, waldo, withr
brio, covr, crayon, dbplyr, DiagrammeR, DiagrammeRsvg,
digest, duckdb, fansi, keyring, knitr, mockr, nycflights13,
odbc, pixarfilms, pool, progress, RMariaDB (>= 1.0.10),
rmarkdown, RPostgres, RSQLite (>= 2.2.8), testthat (>= 3.1.2),
tidyverse, waldo, withr
brio, covr, crayon, dbplyr (>= 2.2.0), DiagrammeR,
DiagrammeRsvg, digest, duckdb (>= 0.4.0), fansi, forcats,
jsonlite, keyring, knitr, mockr, nycflights13, odbc,
pixarfilms, pool, progress, RMariaDB (>= 1.2.2), rmarkdown,
RPostgres, RSQLite (>= 2.2.8), testthat (>= 3.1.2), tidyverse,
waldo, withr
brio, colourpicker, covr, crayon, dbplyr (>= 2.2.0),
DiagrammeR, DiagrammeRsvg, digest, duckdb (>= 0.4.0), fansi,
forcats, htmltools, htmlwidgets, jsonlite, keyring, knitr,
mockr, nycflights13, odbc, pixarfilms, pool, progress,
reactable, RMariaDB (>= 1.2.2), rmarkdown, RPostgres, RSQLite
(>= 2.2.8), rstudioapi, shiny, shinyAce, shinydashboard,
testthat (>= 3.1.2), tidyverse, waldo, withr
covr (>= 3.2.1), testthat (>= 2.0.1), here (>= 0.1),
kableExtra (>= 0.9.0), shiny, openxlsx, xfun
covr (>= 3.2.1), testthat (>= 2.0.1), here (>= 0.1), shiny,
openxlsx, xfun
rmarkdown, knitr, testthat (>= 3.0.0), covr
testthat (>= 2.1.0), knitr, rmarkdown, markdown, xml2, readr,
bc3net, DWLasso, huge, GENIE3, minet, AnnotationDbi,
reactome.db, biomaRt
testthat (>= 2.1.0), knitr, rmarkdown, readr, bc3net,
corpcor, DWLasso, GENIE3, huge, igraph, minet, ggplot2, SeqNet,
biomaRt, reactome.db
testthat (>= 2.1.0), knitr, rmarkdown, readr, bc3net,
DWLasso, GENIE3, huge, minet
testthat (>= 2.1.0), knitr, rmarkdown, readr, bc3net,
DWLasso, huge, GENIE3, minet
testthat (>= 2.1.0), knitr, rmarkdown, readr, bc3net,
DWLasso, huge, GENIE3, minet, reactome.db
limma, survival, foreach, doParallel, Biobase
pbkrtest (>= 0.3-8), ggplot2, multcomp, geepack
pbkrtest (>= 0.3-8), ggplot2, multcomp, geepack, lme4
pbkrtest (>= 0.4-3), ggplot2, multcomp, geepack, lme4
pbkrtest (>= 0.4-6), ggplot2, multcomp, geepack, lme4,
survival
pbkrtest (>= 0.4-6), ggplot2, multcomp, geepack, lme4,
survival, knitr
multcomp, geepack, lme4, survival, ggplot2, tidyverse, knitr
multcomp, geepack, lme4, survival, ggplot2, knitr
multcomp, geepack, lme4, survival, testthat (>= 2.1.0), knitr
multcomp, geepack, lme4, survival, knitr
censReg, cluster, CPE, dbscan, e1071, ggpubr, Hmisc, igraph,
mclust, parallel, RColorBrewer, reshape2, testthat (>= 3.0.0),
timeROC, truncnorm
censReg, cluster, clustMixType, CPE, dbscan, e1071, ggpubr,
Hmisc, igraph, mclust, parallel, RColorBrewer, reshape2,
testthat (>= 3.0.0), timeROC, truncnorm
multicore(>= 0.1-3), nws(>= 1.7.0.0), randomForest
doParallel, doMPI, doRedis, knitr, bibtex, rbenchmark
doParallel, doMPI, doRedis, rbenchmark, RUnit, devtools,
knitr, bibtex
doParallel, doMPI, doRedis, rbenchmark, devtools, knitr,
bibtex, testthat
doParallel, doMPI, doRedis, rbenchmark, devtools, knitr,
bibtex, testthat, pkgmaker (>= 0.31)
compiler, RUnit, caret, mlbench, rpart, parallel
knitr, rmarkdown, OutliersO3, mbgraphic, ggplot2
knitr, rmarkdown, OutliersO3, ggplot2, FNN
tokenizers.bpe, word2vec (>= 0.3.3), uwot, dbscan, udpipe (>=
0.8)
copula, numDeriv, Deriv, cubature, SparseGrid, mvtnorm,
testthat
copula, numDeriv, Deriv (>= 3.6.1), cubature, SparseGrid,
mvtnorm, testthat
copula, numDeriv, Deriv (>= 3.8.5), cubature, SparseGrid,
mvtnorm, testthat
tidyverse, knitr, rmarkdown, covr, testthat
knitr, rmarkdown, RUnit, testthat, datasets, rprojroot, covr
knitr, rmarkdown, devtools, RUnit, testthat, datasets,
rprojroot, covr
knitr, rmarkdown, devtools, RUnit, testthat, pkgload,
datasets, rprojroot, covr
covr, datasets, devtools, fritools, knitr, pkgload,
rmarkdown, rprojroot, RUnit, testthat
knitr, pkgload, rmarkdown, RUnit, testthat
covr, knitr, rmarkdown, rprojroot, testthat
devtools, ggplot2, igraphdata, knitr, purrr, rmarkdown,
roxygen2, scales, testthat
devtools, ggplot2, igraphdata, knitr, purrr, RColorBrewer,
rmarkdown, roxygen2, scales, testthat
devtools, ggplot2, igraphdata, knitr, purrr, RColorBrewer,
rmarkdown, roxygen2, scales, testthat, tidygraph
devtools, ggplot2, igraphdata, knitr, purrr, RColorBrewer,
rmarkdown, roxygen2, scales, sf, testthat, tinytex, tidygraph
dplyr, geodist, ggplot2, igraphdata, jsonlite, knitr, purrr,
RColorBrewer, rmarkdown, roxygen2, scales, sf, testthat,
tidygraph
bench, dplyr, geodist, ggplot2, igraph, igraphdata, jsonlite,
knitr, markdown, purrr, rbenchmark, RColorBrewer, rmarkdown,
roxygen2, scales, sf, testthat, tidygraph
bench, dplyr, geodist, ggplot2, igraph, igraphdata, jsonlite,
knitr, markdown, rmarkdown, roxygen2, sf, testthat, tidygraph
dplyr, geodist, ggplot2, igraphdata, jsonlite, knitr, purrr,
rbenchmark, RColorBrewer, rmarkdown, roxygen2, scales, sf,
testthat, tidygraph
dplyr, geodist, ggplot2, igraph, igraphdata, jsonlite, knitr,
purrr, rbenchmark, RColorBrewer, rmarkdown, roxygen2, scales,
sf, testthat, tidygraph
dplyr, geodist, ggplot2, igraph, igraphdata, jsonlite, knitr,
markdown, purrr, rbenchmark, RColorBrewer, rmarkdown, roxygen2,
scales, sf, testthat, tidygraph
testthat (>= 3.0.0), devtools, tidyr, networkD3, tibble
lme4, boot, testthat, car, heplots, covr,
knitr,rmarkdown,caTools,pscl
lme4, boot, testthat, car, covr, knitr,rmarkdown,pscl, dynlm
lme4, boot, testthat, car, covr, knitr,rmarkdown,pscl, dynlm,
ggplot2, reshape2, betareg
lme4, boot, testthat, car, covr, knitr,rmarkdown,pscl, dynlm,
ggplot2, reshape2, betareg, performance
dominanceanalysis, testthat (>= 3.0.0), relaimpo, yhat,
knitr, rmarkdown
testthat (>= 3.0.0), relaimpo, yhat, knitr, rmarkdown,
tidyverse
dplyr, forcats, Formula, ggplot2, knitr, parameters,
performance, purrr, relaimpo, rlang, rmarkdown, stringr,
testthat (>= 3.0.0), tidyr
knitr, nabor, RANN, RANN.L1, rmarkdown, testthat (>= 2.1.0)
knitr, nabor, RANN, rmarkdown, testthat (>= 2.1.0)
rmarkdown, knitr, testthat, tidyr, dplyr, ggplot2, prettydoc
microbenchmark, OpenMPController, RColorBrewer, roxygen2,
spam, testthat,
microbenchmark, covr, withr, testthat (>= 3.0.0)
knitr, rmarkdown, testthat (>= 3.0.0), wacolors
mfx, ordinal, tibble, gridExtra, knitr, rmarkdown
ordinal, tibble, gridExtra, knitr, rmarkdown, broom
rmarkdown, jsonlite, MASS, testthat, covr, pkgload, xml2
rmarkdown, jsonlite, MASS, testthat (>= 3.0.0), covr,
pkgload, xml2
covr, htmltools, jsonlite, leaflet, MASS, pkgload, rmarkdown,
testthat (>= 3.0.0), xml2
covr, htmltools, jsonlite, MASS, pkgload, rmarkdown, testthat
(>= 3.0.0), xml2
covr, htmltools, jsonlite, MASS, MassSpecWavelet, pkgload,
rmarkdown, testthat (>= 3.0.0), xml2
knitr, rmarkdown, testthat (>= 3.0.1), spelling, covr
rgeos, spocc (>= 0.4.0), spoccutils (>= 0.1.0)
rgeos, rgdal, rgbif (>= 0.9.2), knitr, rmarkdown, bookdown
DT, ggplot2, knitr, markdown, shinythemes, xtable
DT, ggplot2, knitr, markdown, rmarkdown, shinythemes, xtable
digest, DT, ggplot2, knitr, markdown, rhandsontable,
rmarkdown, shinythemes, xtable
foreach, forecast, iterators, RUnit (>= 0.4.25), waveslim
Biobase, dichromat (>= 1.2-3), foreach, forecast, iterators,
knitr, RColorBrewer, RUnit (>= 0.4.25), tikzDevice, waveslim
Biobase, dichromat (>= 1.2-3), foreach, forecast, iterators,
knitr, RColorBrewer, testthat (>= 0.8), tikzDevice, waveslim
Biobase, Cairo (>= 1.5-0), dichromat (>= 1.2-3), foreach,
forecast, iterators, knitr, RColorBrewer, testthat (>= 0.8),
tikzDevice, waveslim
Biobase, Cairo (>= 1.5-0), dichromat (>= 1.2-3), foreach,
forecast, gmp (>= 0.5-5), iterators, knitr, RColorBrewer,
testthat (>= 0.8), tikzDevice, waveslim
Biobase, Cairo (>= 1.5-0), dichromat (>= 1.2-3), foreach,
forecast (>= 3.6), gmp (>= 0.5-5), iterators, knitr,
RColorBrewer, testthat (>= 0.8), tikzDevice, waveslim
Cairo (>= 1.5-0), dichromat (>= 1.2-3), foreach, forecast (>=
3.6), gmp (>= 0.5-5), iterators, knitr, RColorBrewer,
rmarkdown, testthat (>= 0.8), tikzDevice, waveslim
hflights, RSQLite, RSQLite.extfuns, RMySQL, RPostgreSQL,
data.table, bigrquery, testthat, Lahman, knitr, microbenchmark,
ggplot2, mgcv
RSQLite, RSQLite.extfuns, RMySQL, MonetDB.R, RPostgreSQL,
data.table, bigrquery, testthat, knitr, microbenchmark,
ggplot2, mgcv
RSQLite, RSQLite.extfuns, RMySQL, RPostgreSQL, data.table,
testthat, knitr, microbenchmark, ggplot2, mgcv, Lahman (>=
3.0-1), nycflights13, methods
RSQLite (>= 1.0.0), RMySQL, RPostgreSQL, data.table,
testthat, knitr, microbenchmark, ggplot2, mgcv, Lahman (>=
3.0-1), nycflights13, methods
RSQLite (>= 1.0.0), RMySQL, RPostgreSQL, testthat, knitr,
microbenchmark, ggplot2, mgcv, Lahman (>= 3.0-1), nycflights13,
methods, rmarkdown, covr, dtplyr
bit64, covr, dbplyr, dtplyr, DBI, ggplot2, hms, knitr, Lahman
(>= 3.0-1), mgcv, microbenchmark, nycflights13, rmarkdown,
RMySQL, RPostgreSQL, RSQLite, testthat, withr
bit64, callr, covr, crayon (>= 1.3.4), DBI, dbplyr, dtplyr,
ggplot2, hms, knitr, Lahman, lubridate, MASS, mgcv,
microbenchmark, nycflights13, rmarkdown, RMySQL, RPostgreSQL,
RSQLite, testthat, withr, broom, purrr, readr
bench, broom, callr, covr, DBI, dbplyr (>= 1.4.3), knitr,
Lahman, lobstr, microbenchmark, nycflights13, purrr, rmarkdown,
RMySQL, RPostgreSQL, RSQLite, testthat (>= 2.1.0), withr
bench, broom, callr, covr, DBI, dbplyr (>= 1.4.3), ggplot2,
knitr, Lahman, lobstr, microbenchmark, nycflights13, purrr,
rmarkdown, RMySQL, RPostgreSQL, RSQLite, testthat (>= 3.1.1),
tidyr, withr
bench, broom, callr, covr, DBI, dbplyr (>= 1.4.3), knitr,
Lahman, lobstr, microbenchmark, nycflights13, purrr, rmarkdown,
RMySQL, RPostgreSQL, RSQLite, testthat (>= 3.0.2), tidyr, withr
markdown, knitr, htmltools, RcppDynProg, microbenchmark,
ggplot2
testthat, extrafont, ggplot2, jsonlite, rhandsontable, V8,
htmlwidgets, shinytest
drc, devtools, roxygen2, testthat, knitr, rmarkdown
drc, devtools, roxygen2, testthat, knitr, rmarkdown, tibble
testthat (>= 2.1.0), processx, knitr, rmarkdown
testthat (>= 2.1.0), processx, knitr, zip, rmarkdown
knitr, tidyr, tibble, dplyr, rmarkdown, testthat
abind, knitr, MASS, methods, rmarkdown, tibble
abind, future.batchtools, MASS, methods, rmarkdown, tibble
abind, cranlogs, DBI, Ecdat, future.batchtools, ggplot2,
MASS, methods, RSQLite, rmarkdown, tibble
abind, cranlogs, curl, DBI, DT, dplyr, Ecdat,
future.batchtools, ggplot2, httr, MASS, methods, RSQLite,
rmarkdown, tidyr
abind, callr, cranlogs, curl, DBI, DT, Ecdat,
future.batchtools, ggplot2, httr, MASS, methods, RSQLite,
rmarkdown, tidyr
abind, callr, DBI, MASS, methods, RSQLite, rmarkdown, tidyr
abind, callr, clustermq, DBI, future, future.apply, ggplot2,
ggraph, lubridate, MASS, methods, networkD3, RSQLite, txtq,
rmarkdown, visNetwork
abind, bindr, callr, clustermq, crayon, DBI, downloader,
future, future.apply, grDevices, ggplot2, ggraph, knitr,
lubridate, MASS, methods, networkD3, RSQLite, rprojroot,
testthat, txtq, rmarkdown, styler, visNetwork, webshot
abind, bindr, callr, clustermq, CodeDepends, crayon, DBI,
downloader, future.apply, grDevices, ggplot2, ggraph, knitr,
lubridate, MASS, methods, networkD3, prettycode, RSQLite,
rprojroot, testthat, txtq, rmarkdown, styler, visNetwork,
webshot
abind, bindr, callr, clustermq, CodeDepends, crayon,
datasets, DBI, downloader, future, future.apply, grDevices,
ggplot2, ggraph, knitr, lubridate, networkD3, parallel,
prettycode, RSQLite, stats, testthat, tidyselect (>= 0.2.4),
txtq, rmarkdown, styler, visNetwork, webshot
abind, bindr, callr, clustermq, CodeDepends, crayon, curl,
datasets, downloader, future, grDevices, ggplot2, ggraph,
knitr, lubridate, networkD3, parallel, prettycode, stats,
testthat, tibble, tidyselect (>= 0.2.4), rmarkdown, styler,
visNetwork, webshot
abind, bindr, callr, cli, clustermq, CodeDepends, crayon,
curl, datasets, downloader, future, ggplot2, ggraph, grDevices,
knitr, lubridate, networkD3, parallel, prettycode, Rcpp,
rmarkdown, rstudioapi, stats, styler, testthat, tibble,
tidyselect (>= 0.2.4), usethis, visNetwork, webshot
abind, bindr, callr, cli (>= 1.1.0), clustermq (>= 0.8.8),
crayon, curl (>= 2.7), data.table, datasets, disk.frame,
downloader, fst, future, ggplot2, ggraph, grDevices, keras,
knitr, lubridate, networkD3, prettycode, qs (>= 0.20.2), Rcpp,
rmarkdown, rstudioapi, stats, styler (>= 1.2.0), testthat (>=
2.1.0), tibble, tidyselect (>= 0.2.4), txtplot, usethis,
visNetwork, webshot
abind, bindr, callr, cli (>= 1.1.0), clustermq (>= 0.8.8),
crayon, curl (>= 2.7), data.table, datasets, disk.frame,
downloader, fst, future, ggplot2, ggraph, grDevices, keras,
knitr, lubridate, networkD3, prettycode, progress (>= 1.2.2),
qs (>= 0.20.2), Rcpp, rmarkdown, rstudioapi, stats, styler (>=
1.2.0), testthat (>= 2.1.0), tibble, tidyselect (>= 0.2.4),
txtplot, usethis, visNetwork, webshot
abind, bindr, callr, cli (>= 1.1.0), clustermq (>= 0.8.8),
crayon, curl (>= 2.7), data.table, datasets, disk.frame,
downloader, fst, future, ggplot2, ggraph, grDevices, keras,
knitr, lubridate, networkD3, prettycode, progress (>= 1.2.2),
qs (>= 0.20.2), Rcpp, rmarkdown, rstudioapi, stats, styler (>=
1.2.0), testthat (>= 2.1.0), tibble, tidyselect (>= 1.0.0),
txtplot, usethis, visNetwork, webshot
abind, bindr, callr, cli (>= 1.1.0), clustermq (>= 0.8.8),
crayon, curl (>= 2.7), data.table, datasets, disk.frame,
downloader, fst, future, ggplot2, ggraph, grDevices, keras,
knitr, lubridate, networkD3, prettycode, progress (>= 1.2.2),
qs (>= 0.20.2), Rcpp, rmarkdown, rstudioapi, stats, styler (>=
1.2.0), testthat (>= 2.1.0), tibble, txtplot, usethis,
visNetwork (>= 2.0.9), webshot
abind, bindr, callr, cli (>= 1.1.0), clustermq (>= 0.8.8),
crayon, curl (>= 2.7), data.table, datasets, disk.frame,
downloader, fst, future (>= 1.3.0), ggplot2, ggraph, grDevices,
keras, knitr, lubridate, networkD3, prettycode, progress (>=
1.2.2), qs (>= 0.20.2), Rcpp, rmarkdown, rstudioapi, stats,
styler (>= 1.2.0), testthat (>= 2.1.0), tibble, txtplot,
usethis, visNetwork (>= 2.0.9), webshot
abind, bindr, callr, cli (>= 1.1.0), clustermq, CodeDepends,
crayon, curl, datasets, downloader, future, ggplot2, ggraph,
grDevices, knitr, lubridate, networkD3, parallel, prettycode,
Rcpp, rmarkdown, rstudioapi, stats, styler, testthat, tibble,
tidyselect (>= 0.2.4), usethis, visNetwork, webshot
abind, bindr, callr, cli (>= 1.1.0), clustermq, crayon, curl,
datasets, downloader, future, ggplot2, ggraph, grDevices,
knitr, lubridate, networkD3, parallel, prettycode, Rcpp,
rmarkdown, rstudioapi, stats, styler, testthat, tibble,
tidyselect (>= 0.2.4), txtplot, usethis, visNetwork, webshot
abind, bindr, callr, cli (>= 1.1.0), clustermq, crayon, curl
(>= 2.7), datasets, downloader, future, ggplot2, ggraph,
grDevices, knitr, lubridate, networkD3, parallel, prettycode,
Rcpp, rmarkdown, rstudioapi, stats, styler, testthat, tibble,
tidyselect (>= 0.2.4), txtplot, usethis, visNetwork, webshot
abind, bindr, callr, cli (>= 1.1.0), clustermq (>= 0.8.8),
crayon, curl (>= 2.7), datasets, downloader, future, ggplot2,
ggraph, grDevices, knitr, lubridate, networkD3, parallel,
prettycode, Rcpp, rmarkdown, rstudioapi, stats, styler,
testthat (>= 2.1.0), tibble, tidyselect (>= 0.2.4), txtplot,
usethis, visNetwork, webshot
abind, bindr, callr, cli (>= 1.1.0), clustermq (>= 0.8.8),
crayon, curl (>= 2.7), datasets, downloader, fst, future,
ggplot2, ggraph, grDevices, keras, knitr, lubridate, networkD3,
parallel, prettycode, Rcpp, rmarkdown, rstudioapi, stats,
styler, testthat (>= 2.1.0), tibble, tidyselect (>= 0.2.4),
txtplot, usethis, visNetwork, webshot
abind, bindr, callr, cli (>= 1.1.0), clustermq (>= 0.8.8),
crayon, curl (>= 2.7), data.table, datasets, downloader, fst,
future, ggplot2, ggraph, grDevices, keras, knitr, lubridate,
networkD3, parallel, prettycode, Rcpp, rmarkdown, rstudioapi,
stats, styler, testthat (>= 2.1.0), tibble, tidyselect (>=
0.2.4), txtplot, usethis, visNetwork, webshot
abind, bindr, callr, cli (>= 1.1.0), clustermq (>= 0.8.8),
crayon, curl (>= 2.7), data.table, datasets, disk.frame,
downloader, fst, future, ggplot2, ggraph, grDevices, keras,
knitr, lubridate, networkD3, parallel, prettycode, Rcpp,
rmarkdown, rstudioapi, stats, styler, testthat (>= 2.1.0),
tibble, tidyselect (>= 0.2.4), txtplot, usethis, visNetwork,
webshot
abind, bindr, callr, cli (>= 1.1.0), clustermq (>= 0.8.8),
crayon, curl (>= 2.7), data.table, datasets, disk.frame,
downloader, fst, future, ggplot2, ggraph, grDevices, keras,
knitr, lubridate, networkD3, parallel, prettycode, Rcpp,
rmarkdown, rstudioapi, stats, styler (>= 1.2.0), testthat (>=
2.1.0), tibble, tidyselect (>= 0.2.4), txtplot, usethis,
visNetwork, webshot
knitr, rmarkdown, spelling, testthat (>= 3.1.0)
testthat (>= 3.0), fs (>= 1.5), knitr, rmarkdown, tibble,
spelling
rmarkdown, scales, modelsummary, likert, knitr, tidyverse,
kableExtra
covr, ggplot2, mockery, testthat (>= 3.0.0), tibble, vdiffr
testthat, knitr, rmarkdown, gam, quadprog, nloptr, doParallel
testthat, knitr, rmarkdown, gam, quadprog, nloptr, parallel,
snow
testthat, knitr, rmarkdown, gam, earth, quadprog, nloptr,
parallel, snow, foreach
testthat, knitr, rmarkdown, gam, earth, quadprog, nloptr,
parallel, foreach
testthat, knitr, rmarkdown, gam, earth, quadprog, nloptr,
parallel, foreach, stringi
testthat, knitr, rmarkdown, gam, earth, quadprog, nloptr,
parallel, foreach, stringi, future.batchtools
testthat, knitr, rmarkdown, gam, quadprog, nloptr, parallel,
foreach, stringi
knitr, rmarkdown, BiocGenerics, RUnit, PharmacoGx
testthat, knitr, rmarkdown, ggplot2, cowplot, spelling
ggplot2, kableExtra, knitr, lme4, rmarkdown, sirt, testthat
testthat, parallel, pbapply, knitr, lwgeom, rmarkdown
knitr, rmarkdown, tibble, covr, testthat
bench, covr, knitr, rmarkdown, testthat (>= 2.1.0)
bench, covr, knitr, rmarkdown, testthat (>= 3.0.0), tidyr (>=
1.1.0)
here, knitr, magick, rmarkdown, staplr, tidyverse, devtools,
testthat (>= 2.1.0), rstudioapi
randomForest, tree, MASS, ISLR, matrixStats, plyr,
rpart.utils, stringr, pROC
testthat, knitr, rmarkdown, rticles, gridExtra, grid, png,
rgdal, Hmisc, xtable
testthat, knitr, rmarkdown, rticles, gridExtra, grid, png,
Hmisc, xtable, tikzDevice
testthat, knitr, rmarkdown, rticles, gridExtra, grid, png,
Hmisc, tikzDevice
knitr, rmarkdown, rticles, gridExtra, grid, png, Hmisc,
tikzDevice
gridExtra, grid, png, Hmisc, rbenchmark, doParallel, knitr,
rmarkdown
TSdist, TSclust, doParallel, testthat, knitr
TSdist, TSclust, cluster, doParallel, testthat, knitr
TSdist, TSclust, cluster, doParallel, knitr, rmarkdown,
testthat
doParallel, knitr, rmarkdown, testthat, TSclust, TSdist
doParallel, knitr, parallelDist, rmarkdown, testthat,
TSclust, TSdist
doParallel, knitr, parallelDist, testthat, TSclust, TSdist
callr, DBItest, dbplyr, nycflights13, testthat
callr, DBItest, dbplyr, nycflights13, testthat, withr
arrow, callr, DBItest, dbplyr, nycflights13, testthat, withr
arrow, callr, DBItest, dplyr, dbplyr, nycflights13, testthat,
withr
arrow, callr, DBItest, dplyr, dbplyr, nycflights13, testthat,
tibble, vctrs, withr
arrow, bit64, callr, DBItest, dplyr, dbplyr, rlang, testthat,
tibble, vctrs, withr
knitr, microbenchmark, printr, rmarkdown, RcppRoll
knitr, rmarkdown, testthat (>= 2.0.0), mockery, curl
knitr, rmarkdown, testthat (>= 2.0.0), mockery
its, MASS, quantreg (>= 3.82), randomForest, tseries
its (>= 1.0.9), MASS, quantreg (>= 3.82), randomForest, tseries
its (>= 1.0.9), lattice, MASS, MCMCpack, quantreg (>= 3.82),
randomForest, sandwich, tseries
its (>= 1.0.9), MASS, MCMCpack, quantreg (>= 3.82), randomForest,
sandwich, tseries
lattice, MASS, MCMCpack, quantreg (>= 3.82), randomForest,
sandwich, tseries
devtools, usethis, rmarkdown, markdown, knitr, covr (>=
3.5.1), testthat (>= 3.0.0), lintr (>= 0.28), remotes, pkgdown,
prettydoc, here, fansi, pander, DT
tidyr, ggplot2, testthat (>= 3.0.0), knitr, rmarkdown
parallel, rmarkdown, knitr, eesim, geosphere, ggplot2, gstat,
rgeos, spatstat, tidyverse
testthat, knitr, rmarkdown, timereg, captioner, biglm, httr,
mgcv, shiny, formatR
testthat, knitr, rmarkdown, timereg, captioner, biglm, httr,
mgcv, shiny, formatR, R.rsp
testthat, knitr, rmarkdown, timereg, captioner, biglm, httr,
mgcv, shiny, formatR, R.rsp, speedglm, dichromat, colorspace
testthat, knitr, rmarkdown, timereg, captioner, biglm, httr,
mgcv, shiny, formatR, R.rsp, speedglm, dichromat, colorspace,
plyr, gsl, mvtnorm
testthat, knitr, rmarkdown, timereg, captioner, biglm, httr,
mgcv, shiny, formatR, R.rsp, speedglm, dichromat, colorspace,
plyr, gsl, mvtnorm, nloptr (>= 1.2.0)
raster, rgdal, knitr, rmarkdown, covr, bookdown, pkgdown,
testthat (>= 3.0.0)
raster, knitr, rmarkdown, bookdown, testthat (>= 3.0.0)
rgdal, igraph, knitr, rmarkdown, covr, pkgdown
testthat, destiny, diffusionMap, fastICA, lle, MASS, Rtsne,
smacof, uwot
testthat, destiny, diffusionMap, fastICA, lle, MASS, Matrix,
Rtsne, smacof, uwot
testthat, destiny, diffusionMap, fastICA, igraph, lle, MASS,
Matrix, RANN, Rtsne, smacof, uwot
testthat, diffusionMap, fastICA, igraph, lle, MASS, Matrix,
RANN, Rtsne, smacof, uwot
covr, dynwrap (>= 1.2.0), knitr, R.rsp, rmarkdown, testthat
anndata, covr, dynwrap (>= 1.2.0), R.rsp, rmarkdown, Seurat,
SingleCellExperiment (>= 1.5.3), SummarizedExperiment, testthat
covr, hexbin, knitr, RColorBrewer, rje, rmarkdown, testthat
(>= 3.0.0), uwot
testthat, roxygen2 (>= 3.1), knitr, rmarkdown
testthat, roxygen2 (>= 3.1), knitr, rmarkdown, RcppGSL
covr, ggplot2, hdf5r (>= 1.3.4), knitr, rmarkdown, testthat
ggplot2, hdf5r, knitr, Matrix, readr, rmarkdown
ggplot2, hdf5r, knitr, readr, rmarkdown, testthat
covr, ggplot2, hdf5r, knitr, readr, rmarkdown, testthat
curl, devtools, dyndimred, ggplot2, knitr, lhs, pkgload,
ranger, rmarkdown, viridis
dyndimred, knitr, pkgload, ranger, rmarkdown
dyndimred, hdf5r, knitr, pkgload, ranger, rmarkdown, testthat
cluster, mlbench, nnet, randomForest, rpart, SparseM, xtable
cluster, mlbench, nnet, randomForest, rpart, SparseM, xtable, methods
cluster, mlbench, nnet, randomForest, rpart, SparseM, xtable, methods, Matrix
cluster, mlbench, nnet, randomForest, rpart, SparseM, xtable,
methods, Matrix
cluster, mlbench, nnet, randomForest, rpart, SparseM, xtable,
Matrix
cluster, mlbench, nnet, randomForest, rpart, SparseM, xtable,
Matrix, MASS
cluster, mlbench, nnet, randomForest, rpart, SparseM, xtable,
Matrix, MASS, slam
MASS, Matrix, ROCR, c060, methods, utils, R.rsp
knitr, maps, maptools, mapview, rmarkdown, testthat (>=
2.1.0)
knitr, leafem, maps, maptools, rmarkdown, testthat (>= 2.1.0)
colorRamps, colourpicker, dichromat, DT, knitr, leafem,
leaflet, maps, maptools, raster, RColorBrewer, rmarkdown,
shinybusy, shinydashboard, shinyjs, testthat (>= 2.1.0), tmap
(>= 2.3), viridis, zip
testthat, vdiffr, roxygen2, incidence, knitr
testthat, vdiffr, roxygen2, incidence, knitr, rmarkdown,
projections, covr
testthat, cluster, knitr, rmarkdown, ggplot2
knitr, rmarkdown, RegSDC, Matrix, testthat (>= 2.1.0)
knitr, rmarkdown, RegSDC, testthat (>= 2.1.0)
testthat, knitr, rmarkdown, parallel, R.rsp, verification
testthat, covr, ISLR, nycflights13, vdiffr
testthat, covr, ISLR, nycflights13, vdiffr (>= 0.3.1)
testthat, covr, ISLR, nycflights13, vdiffr (>= 0.3.1),
parcats
testthat, covr, ISLR, nycflights13, vdiffr (>= 0.3.1),
parcats, pkgdown, mlbench, earth, workflows, future, furrr,
e1071, caret, parsnip, vip, rpart, glmnet, xgboost
testthat, covr, ISLR, nycflights13, vdiffr (>= 0.3.1),
pkgdown, mlbench, earth, workflows, future, furrr, e1071,
caret, parsnip, vip, rpart, glmnet, xgboost
knitr, RMariaDB, rmarkdown, RPostgres, RSQLite, testthat (>=
3.0.0)
AnnotationDbi, knitr, org.Hs.eg.db, qvalue, rmarkdown
pdftools, qs, rstudioapi, testthat (>= 3.0.0)
DT, flexdashboard, jsonlite, knitr, rmarkdown, rvest,
testthat (>= 3.1.0), withr, xml2
DT, flexdashboard (>= 0.6.0), jsonlite, knitr, rmarkdown,
rvest, testthat (>= 3.1.0), withr, xml2
rmarkdown, testthat, kableExtra, usethis, devtools
rmarkdown, testthat, kableExtra, knitr, usethis, devtools
rmarkdown, testthat, knitr, kableExtra, usethis, devtools
rmarkdown, testthat, knitr, kableExtra, devtools
testthat (>= 2.1.0), covr, knitr, rmarkdown, readxl,
Rsymphony
testthat (>= 2.1.0), covr, knitr, rmarkdown, readxl
testthat, knitr, rmarkdown, covr, tidyr (>= 1.1.0)
spelling, testthat (>= 2.1.0), lpSolve, knitr, rmarkdown
covr, fields, knitr, rmarkdown, rnaturalearth, smoothr,
testthat, velox
covr, fields, knitr, rmarkdown, rnaturalearth, smoothr,
testthat
covr, fields, knitr, rmarkdown, rnaturalearth, testthat
exactextractr, fields, knitr, rmarkdown, rnaturalearth,
testthat, withr
knitr, rmarkdown, ggplot2, ggridges, cowplot
knitr, rmarkdown, dplyr, ggplot2, testthat
knitr, rmarkdown, dplyr, lubridate, ggplot2, testthat, zoo
testthat (>= 2.1.0), knitr, rmarkdown, dplyr
knitr, testthat, roxygen2, ghyp, fOptions
knitr, testthat, roxygen2, ghyp, fOptions, shape
knitr, testthat (>= 2.1.0), rmarkdown, covr
knitr, testthat (>= 2.1.0), rmarkdown, covr, learnr, utf8
knitr, testthat (>= 2.1.0), rmarkdown, covr, learnr
jsonlite, shiny, quantmod, png, tibble, htmltools
data.tree, jsonlite, knitr, rmarkdown, quantmod, png, tibble,
htmltools, tidyr
data.tree, jsonlite, knitr, rmarkdown, quantmod, tibble,
htmltools, tidyr, sp, raster, geojsonio, rmapshaper, corrplot
tidyr, testthat, knitr, rmarkdown, covr, data.tree, leaflet
tidyr, testthat, knitr, rmarkdown, covr, data.tree, leaflet,
tibble
crosstalk, rmarkdown, knitr, shiny, testthat (>= 3.0.0)
magrittr, crosstalk, rmarkdown, knitr, testthat (>= 3.0.0),
covr
crosstalk, rmarkdown, knitr, testthat (>= 3.0.0)
crosstalk, rmarkdown, knitr, testthat (>= 3.0.0), sf
ggplot2, ggmap, ggrepel, here, httptest, kableExtra, knitr,
rmarkdown
ggplot2, ggmap, ggrepel, here, httptest, kableExtra, knitr,
rmarkdown, sf, testthat
spelling, ggplot2, ggmap, ggrepel, here, httptest,
kableExtra, knitr, rmarkdown, sf, testthat
ggplot2, ggrepel, ggspatial, here, httptest, kableExtra,
knitr, raster, rmarkdown, sf, testthat, utf8
cluster, earth, ncvreg, knitr, rmarkdown, protoclust,
factoextra, ComplexHeatmap, circlize, pheatmap, viridis, pROC,
glmnet
knitr, rmarkdown, covr, testthat, raster, maps, ncdf4
rmarkdown, covr, testthat, raster, maps, ncdf4, stars, knitr,
rmarkdown, covr, testthat, raster, maps, ncdf4, stars, knitr,
stats, rlang, rstudioapi, jsonlite
rmarkdown, covr, testthat, raster, maps, ncdf4, knitr, rlang,
rstudioapi, jsonlite
rmarkdown, covr, testthat, raster, terra, maps, ncdf4, knitr,
rlang, rstudioapi, jsonlite
knitr, rmarkdown, testthat,tidyr, ggplot2, RColorBrewer,
ggraph, labdsv, tidygraph
knitr, rmarkdown, curl, xml2, rvest, viridis
knitr, mime (>= 0.9), reader (>= 1.0.6), ritis (>= 1.0.0),
taxize (<= 0.9.99), testthat, worrms (>= 0.4.2), ggrepel,
usmap, maptools, rgdal
knitr, mime (>= 0.9), reader (>= 1.0.6), ritis (>= 1.0.0),
taxize (<= 0.9.99), testthat, worrms (>= 0.4.2), ggrepel, usmap
(>= 0.6.0), maptools, rgdal
ape, changepoint, knitr, picante, rmarkdown, testthat, untb,
vegan
testthat (>= 2.1.0), knitr, Rdpack, ggraph
testthat (>= 2.1.0), knitr, markdown, ggraph
testthat (>= 2.1.0), knitr, ggraph, rmarkdown, covr
cheddar, igraph, knitr, rmarkdown, testthat, vdiffr
igraph, knitr, readr, rmarkdown, testthat, vdiffr
knitr, rmarkdown, ade4, caper, car, corrplot, DAAG, DHARMa,
dplyr, ecomix, gclus, GGally, ggplot2, ggthemes, glmnet, gllvm,
glmmTMB, GPArotation, grplasso, lattice, leaps, lme4, MCMCglmm,
multcomp, nlme, ordinal, permute, pgirmess, phylobase,
phylosignal, psych, reshape2, smatr, testthat, vegan, VGAM
knitr, rmarkdown, ade4, caper, car, corrplot, DAAG, DHARMa,
dplyr, gclus, GGally, ggplot2, ggthemes, glmnet, gllvm,
glmmTMB, GPArotation, grplasso, lattice, leaps, lme4, MCMCglmm,
multcomp, nlme, ordinal, permute, pgirmess, phylobase,
phylosignal, psych, reshape2, smatr, testthat, vegan, VGAM,
covr
covr, dplyr, Hmisc, tidyr, testthat, xlsx
covr, dplyr, Hmisc, testthat, tidyr, xlsx
covr, dplyr, Hmisc, readr, testthat, tidyr, xlsx
covr, data.table, dplyr, ggplot2, Hmisc, openxlsx, readr,
testthat, tidyr
vegclust, knitr, rmarkdown, RColorBrewer, smacof, vegan
vegclust, knitr, rmarkdown, RColorBrewer, smacof, vegan,
ggplot2, hrbrthemes, scales, tidyr, viridis
Rsolnp, expm, mgcv, foreach, doParallel, parallel, ggplot2,
ggraph, igraph, scales, dplyr, magrittr
Rsolnp, expm, foreach, doParallel, parallel, ggplot2, ggraph,
igraph, scales, dplyr, magrittr, nnls
Rsolnp, expm, foreach, doParallel, parallel, ggplot2, ggraph,
igraph, ggpubr, scales, dplyr, magrittr, nnls
party, randomForest, randomForestSRC, doParallel, testthat,
rmarkdown, knitr
party, randomForest, randomForestSRC, ranger, testthat,
rmarkdown, knitr
covr, knitr, rmarkdown, sf, sp, testthat
knitr, eventdataR, rmarkdown, covr, testthat (>= 3.0.0)
covr, dplyr, ggplot2, knitr, purrr, rmarkdown, testthat,
tidyr
covr, ggplot2, knitr, purrr, rmarkdown, httptest, devtools,
dplyr, tidyr, roxygen2
covr, ggplot2, knitr, purrr, rmarkdown, httptest, tokenizers,
devtools, dplyr, tidyr, roxygen2
covr, ggplot2, knitr, lintr, purrr, rmarkdown, httptest,
tokenizers, devtools, dplyr, tidyr, roxygen2, pkgdown
testthat (>= 3.0.0), rmarkdown, openxlsx, visNetwork
testthat (>= 3.0.0), rmarkdown, openxlsx, visNetwork, covr
testthat, knitr, rmarkdown, maptools, purrr, sp, GGally,
corrplot, broom, plyr, scales, readr, gridExtra
testthat, knitr, rmarkdown, maptools, purrr, purrrlyr, sp,
GGally, corrplot, broom, plyr, scales, readr, gridExtra
testthat, knitr, rmarkdown, maptools, purrrlyr, GGally,
corrplot, broom, scales, readr, gridExtra, tidyverse, tibble,
spelling
testthat, knitr, rmarkdown, maptools, purrrlyr, GGally,
corrplot, broom, scales, readr, gridExtra, tidyverse, spelling
testthat, knitr, rmarkdown, maptools, purrrlyr, GGally,
corrplot, broom, scales, readr, gridExtra, tidyverse, spelling,
ggmap
cdom, magrittr, testthat, knitr, rmarkdown, ggplot2, plot3D,
extrafont, tidyr, shiny, DT
cdom, magrittr, testthat, knitr, rmarkdown, ggplot2, plot3D,
extrafont, tidyr, shiny, DT, MBA
reshape, sp, plyr, mapproj, testthat, maps, stringr, knitr,
rmarkdown, MASS
reshape, plyr, testthat, stringr, knitr, rmarkdown, MASS
testthat, stringr, knitr, rmarkdown, MASS
dplyr, ggplot2, gridExtra, knitr, rmarkdown, testthat
dplyr, ggplot2, gridExtra, knitr, rmarkdown, sf, testthat
pbkrtest, nlme, MASS, poLCA, heplots, splines, ordinal
pbkrtest (>= 0.4-4), nlme, MASS, poLCA, heplots, splines,
ordinal
pbkrtest (>= 0.4-4), nlme, MASS, poLCA, heplots, splines,
ordinal, car
pbkrtest (>= 0.4-4), nlme, MASS, poLCA, heplots, splines,
ordinal, car, knitr
pbkrtest (>= 0.4-4), nlme, MASS, poLCA, heplots, splines,
ordinal, car, knitr, betareg, alr4
pbkrtest (>= 0.4-4), nlme, MASS, poLCA, heplots, splines,
ordinal, car, knitr, betareg, alr4, robustlmm
afex, brms, boot, covr, dplyr, emmeans, gamm4, ggplot2,
knitr, lmerTest, lm.beta, lme4, MuMIn, performance, ppcor,
rmarkdown, rstan, rstanarm, see, testthat, tidyr
afex, brms, boot, car, correlation, covr, dplyr, emmeans,
gamm4, ggplot2, knitr, lmerTest, lm.beta, lme4, MuMIn,
performance, rlang, rmarkdown, rstan, rstanarm, see, testthat,
tidyr
afex, brms, boot, car, correlation, covr, dplyr, emmeans,
gamm4, ggplot2, knitr, lmerTest, lm.beta, lme4, MuMIn,
modelbased, performance, rlang, rmarkdown, rstan, rstanarm,
rstantools, see, testthat, tidyr
afex, BayesFactor, brms, boot, car, correlation, covr, dplyr,
emmeans, gamm4, ggplot2, knitr, lmerTest, lm.beta, lme4, MuMIn,
modelbased, performance, pscl, rlang, rmarkdown, rstan,
rstanarm, rstantools, see, testthat, tidyr
afex, BayesFactor, boot, brms, car, correlation, covr, dplyr,
emmeans, gamm4, ggplot2, knitr, lavaan, lm.beta, lme4,
lmerTest, mediation, modelbased, MuMIn, performance, pscl,
rlang, rmarkdown, rstan, rstanarm, rstantools, see, testthat,
tidyr
afex, BayesFactor, boot, brms, car, correlation, covr, dplyr,
emmeans, gamm4, ggplot2, knitr, lavaan, lm.beta, lme4,
lmerTest, MASS, mediation, modelbased, MuMIn, performance,
pscl, rlang, rmarkdown, rstan, rstanarm, rstantools, see,
testthat, tidyr
boot, correlation, covr, dplyr, gamm4, ggplot2, knitr, lme4,
lmerTest, modelbased, performance, rmarkdown, rstanarm,
rstantools, see, spelling, testthat, tidyr
afex, BayesFactor, boot, brms, car, correlation, covr, dplyr,
emmeans, gamm4, ggplot2, knitr, lavaan, lm.beta, lme4,
lmerTest, MASS, mediation, modelbased, MuMIn, performance,
pscl, rlang, rmarkdown, rstan, rstanarm, rstantools, see,
testthat, tidyr, spelling
afex, BayesFactor, boot, brms, car, correlation, covr, dplyr,
emmeans, gamm4, ggplot2, knitr, lavaan, lm.beta, lme4,
lmerTest, MASS, mediation, mgcv, modelbased, MuMIn,
performance, pscl, rmarkdown, rms, rstanarm, rstantools, see,
spelling, testthat, tidymodels, tidyr
correlation (>= 0.6.1), see (>= 0.6.4), afex, BayesFactor,
boot, brms, car, covr, emmeans, gamm4, knitr, lavaan, lm.beta,
lme4, lmerTest, MASS, mediation, mgcv, pscl, rmarkdown, rms,
rstanarm, rstantools, spelling, testthat, tidymodels
correlation (>= 0.8.1), see (>= 0.7.1), afex, BayesFactor,
boot, brms, car, emmeans, knitr, lavaan, lme4, lmerTest, MASS,
mgcv, parsnip, rmarkdown, rms, rstanarm, rstantools, testthat
(>= 3.1.0)
correlation (>= 0.8.0), see (>= 0.6.9), afex, BayesFactor,
biglm, boot, brms, car, covr, emmeans, gamm4, knitr, lavaan,
lm.beta, lme4, lmerTest, MASS, mediation, mgcv, pscl,
rmarkdown, rms, rstanarm, rstantools, spelling, testthat,
tidymodels
correlation (>= 0.8.2), see (>= 0.7.3), afex, BayesFactor,
boot, brms, car, emmeans, knitr, lavaan, lme4, lmerTest, MASS,
mgcv, parsnip, rmarkdown, rms, rstanarm, rstantools, testthat
(>= 3.1.0)
testthat (>= 3.0.0), covr, sandwich, MASS, tibble, broom
broom, sandwich, testthat, patrick, rlang, covr
knitr, testthat (>= 2.1.0), rmarkdown, haven
knitr, testthat (>= 2.1.0), rmarkdown, survey, haven
knitr, testthat (>= 2.1.0), rmarkdown, survey, shiny, igraph,
network, haven
testthat (>= 2.1.0), knitr, rmarkdown, crayon
knitr, opencage, plyr, rmarkdown, reshape2, RColorBrewer,
RJSONIO, testthat, tigris
testthat, knitr, rmarkdown, covr, lintr, tidyr
testthat, knitr, rmarkdown, covr, tidyr, ggplot2
testthat, RColorBrewer, knitr, rmarkdown, bench
testthat, covr, lwgeom, units, knitr, rmarkdown
testthat, covr, lwgeom, units, knitr, rmarkdown, vein
colorspace, ggquiver, ggspatial, ggthemes, knitr, MASS,
rmarkdown
knitr, covr, testthat (>= 3.0.0), rmarkdown, shapes
testthat, knitr, rmarkdown, formatR, rgdal
testthat, knitr, rmarkdown, formatR, rgdal, progress
covr, devtools, knitr, pkgdown, psych, rmarkdown, testthat
covr, devtools, knitr, pkgdown, psych, rmarkdown, testthat
(>= 3.0.0)
here, testthat (>= 2.1.0), roxygen2, hexSticker, showtext
here, testthat (>= 2.1.0), roxygen2, showtext
here, memoise, testthat (>= 2.1.0), roxygen2, showtext
cld2, cld3, gpg, here, memoise, testthat (>= 2.1.0),
roxygen2, showtext, Microsoft365R
cld2, cld3, gpg, here, jinjar, lintr, memoise, testthat (>=
2.1.0), roxygen2, showtext, Microsoft365R
cld2, cld3, gpg, here, jinjar, memoise, testthat (>= 2.1.0),
roxygen2, showtext, Microsoft365R
testthat, knitr, rmarkdown, covr, ggplot2
testthat, knitr, rmarkdown, covr, ggplot2, modeldata
testthat, knitr, rmarkdown, covr, ggplot2, modeldata, rpart,
xgboost
rstanarm, lme4, testthat, knitr, rmarkdown, covr, ggplot2,
modeldata, rpart, xgboost
covr, ggplot2, irlba, knitr, lme4, modeldata, rmarkdown,
rpart, rstanarm, testthat (>= 3.0.0), VBsparsePCA, xgboost
covr, ggplot2, irlba, knitr, lme4, modeldata, rmarkdown,
rpart, rstanarm, stringdist, testthat (>= 3.0.0), VBsparsePCA,
xgboost
entropy, shiny, coda, polynom, car, lmf, pbmcapply, gam
entropy, shiny, coda, polynom, car, lmf, gam
entropy, shiny, coda, polynom, car, lmf, gam, pbapply
entropy, shiny, coda, polynom, car, lmf, gam, pbapply,
cranlogs
entropy, shiny, coda, polynom, car, gam, pbapply, cranlogs
R2WinBUGS, rgl, ellipse, coda, bbmle, reshape
R2WinBUGS, rgl, ellipse, coda, bbmle, reshape, SuppDists
R2WinBUGS, ellipse, SuppDists, numDeriv, testthat, rgl
R2jags, ellipse, SuppDists, numDeriv, testthat, rgl
R2WinBUGS, rgl, ellipse, coda, bbmle, reshape, SuppDists,
numDeriv
R2WinBUGS, rgl, ellipse, coda, bbmle, reshape, SuppDists,
numDeriv, testthat
R2WinBUGS, ellipse, SuppDists, numDeriv, testthat
testthat, R.rsp, simFrame, laeken, rgeos, maptools, graphics
caret, cmprsk, glmnet, Hmisc, MASS, party, pamr,
randomForest, RColorBrewer, survival, testthat (>= 0.8.1)
caret, cmprsk, glmnet, Hmisc, MASS, parallel, party, pamr,
randomForest, RColorBrewer, survival, testthat (>= 0.9.1)
caret, cmprsk, glmnet, Hmisc, MASS, parallel, party, pamr,
randomForest, RColorBrewer, rpart, survival, testthat (>=
0.9.1)
caret, cmprsk, e1071, glmnet, Hmisc, MASS, parallel, party,
pamr, randomForest, RColorBrewer, rpart, survival (>= 2.42-5),
testthat (>= 0.9.1)
caret, cmprsk, e1071, glmnet, Hmisc, MASS, parallel, party,
pamr, randomForest, RColorBrewer, rpart, survival, testthat (>=
0.9.1)
spelling, testthat, magrittr, rmarkdown, covr, knitr, rdflib,
jqr
bayesplot, car, lattice, mediation, multcompView, ordinal,
pbkrtest (>= 0.4-1), lme4, lmerTest (>= 2.0.32), MASS, rsm,
knitr, rmarkdown, testthat
bayesplot, brms, car, lattice, mediation, multcompView,
ordinal, pbkrtest (>= 0.4-1), lme4, lmerTest (>= 2.0.32), MASS,
rsm, knitr, rmarkdown, testthat
bayesplot, brms, car, coda (>= 0.17), ggplot2, lattice,
mediation, multcomp, multcompView, nlme, ordinal, pbkrtest (>=
0.4-1), lme4, lmerTest (>= 2.0.32), MASS, rsm, knitr,
rmarkdown, testthat
bayesplot, biglm, brms, car, coda (>= 0.17), ggplot2,
lattice, mediation, multcomp, multcompView, nlme, ordinal,
pbkrtest (>= 0.4-1), lme4, lmerTest (>= 2.0.32), MASS, rsm,
knitr, rmarkdown, testthat
bayesplot, biglm, brms, car, coda (>= 0.17), ggplot2,
lattice, mediation, mgcv, multcomp, multcompView, nlme, ordinal
(>= 2014.11-12), pbkrtest (>= 0.4-1), lme4, lmerTest (>=
2.0.32), MASS, rsm, knitr, rmarkdown, testthat
bayesplot, biglm, brms, car, coda (>= 0.17), ggplot2,
lattice, mediation, mgcv, multcomp, multcompView, nlme, ordinal
(>= 2014.11-12), pbkrtest (>= 0.4-1), lme4, lmerTest (>=
2.0.32), MASS, MuMIn, rsm, knitr, rmarkdown, testthat
bayesplot, biglm, brms, car, coda (>= 0.17), ggplot2,
lattice, mediation, mgcv, multcomp, multcompView, nlme, ordinal
(>= 2014.11-12), pbkrtest (>= 0.4-1), lme4, lmerTest (>=
2.0.32), MASS, MuMIn, rsm, knitr, rmarkdown, scales, testthat
bayesplot, biglm, brms, car, coda (>= 0.17), ggplot2,
lattice, mediation, mgcv, multcomp, multcompView, nlme, ordinal
(>= 2014.11-12), pbkrtest (>= 0.4-1), lme4, lmerTest (>=
2.0.32), MASS, MuMIn, rsm, knitr, rmarkdown, scales, splines,
testthat
bayesplot, bayestestR, biglm, brms, car, coda (>= 0.17),
ggplot2, lattice, logspline, mediation, mgcv, multcomp,
multcompView, nlme, ordinal (>= 2014.11-12), pbkrtest (>=
0.4-1), lme4, lmerTest (>= 2.0.32), MASS, MuMIn, rsm, knitr,
rmarkdown, scales, splines, testthat
bayesplot, bayestestR, biglm, brms, car, coda (>= 0.17),
ggplot2, lattice, logspline, mediation, mgcv, multcomp,
multcompView, nlme, ordinal (>= 2014.11-12), pbkrtest (>=
0.4-1), lme4, lmerTest (>= 2.0.32), MASS, MuMIn, rsm, knitr,
rmarkdown, sandwich, scales, splines, testthat
intoo, bivariate, fclust, mgcv, gam, moments
digest, pillar, readr, rlang, testthat, withr
knitr, testthat, dplyr, ggplot2, ggthemes
roxygen2 (>= 6.0.1), knitr, testthat, covr
knitr, rmarkdown, DiagrammeR, testthat, spelling
testthat, whisker, MASS, brglm, numDeriv, knitr, rmarkdown
testthat, whisker, MASS, SuppDists, brglm, numDeriv, ggplot2,
plyr, doMC, knitr, rmarkdown
whisker, SuppDists, brglm, ggplot2, knitr, rmarkdown
discrim, glmnet, kernlab, knitr, MASS, nnet, ranger,
rmarkdown, stacks, stringr, tidymodels
ensembleBMA, crch, gamlss, ensembleMOS, SpecsVerification,
scoringRules, glmx, ordinal, pROC, mvtnorm
digest, ggforce, gridExtra, knitr, magrittr, microbenchmark,
qwraps2 (>= 0.4.0), R.rsp, rmarkdown
ade4, knitr, pkgdown, rmarkdown, testthat
ade4, knitr, pkgdown, rmarkdown, SPECIES, testthat
knitr, rmarkdown, testthat, MASS, data.table, tibble,
soiltexture
knitr, rmarkdown, testthat (>= 3.0.0), MASS, data.table,
tibble, soiltexture
tools, vegan, ape, picante, gplots, optparse
R.rsp, spatstat.data, spatstat.random, spelling, testthat,
utils
maptools, R.rsp, RStoolbox, spatstat.data, spatstat.random,
spelling, testthat, utils
knitr, testthat, xcms, MSnbase, plotly, shiny, rmarkdown, DT,
crosstalk
testthat, epanet2toolkit, Kmisc (>= 0.5.0)
testthat, epanet2toolkit, data.table (>= 1.11.2)
elasticnet, ggcorrplot, rmarkdown, markdown, reshape2,
matlabr, knitr, PMA,
testthat, covr, knitr, rmarkdown, ggplot2
testthat, lubridate, covr, knitr, rmarkdown, ggplot2
rmarkdown, knitr, reshape2, testthat (>= 3.0.0)
foreach, iterators, precrec, parallel, doParallel, bigmemory,
biglasso, testthat, knitr, rmarkdown, kableExtra
foreach, iterators, precrec, doParallel, bigmemory, biglasso,
testthat, knitr, rmarkdown, kableExtra
MASS (>= 3.1-20), knitr, rmarkdown, RColorBrewer, ggplot2,
plyr, rgdal, scales, spData, spatstat, foreign, maptools,
rgeos, mapproj
MASS (>= 3.1-20), knitr, rmarkdown, RColorBrewer, ggplot2,
plyr, rgdal, scales, spData, spatstat, foreign, maptools,
rgeos, mapproj, tidyverse
MASS (>= 3.1-20), knitr, rmarkdown, RColorBrewer, ggplot2,
plyr, rgdal, scales, spData, spatstat, foreign, maptools,
rgeos, mapproj, tidyverse, kableExtra
outbreaks, testthat, covr, shiny, readr, knitr, rmarkdown
testthat, knitr, gridExtra, bookdown, EpiEstim, lubridate,
kableExtra, extrafont
testthat, roxygen2, knitr, outbreaks, vdiffr, curl, rmarkdown
testthat, roxygen2, knitr, rmarkdown, spelling, devtools,
usethis, pkgdown, styler, lintr, covr, igraph, gtools, stringr,
dplyr, ggplot2
testthat (>= 2.1.0), outbreaks, epidict, covr, knitr,
magrittr, rmarkdown
ade4, bbmle, fields, forecast, imputeTS, lme4, ncf, nleqslv,
nlme, nlts, plotrix, pomp, rootSolve, Rwave, statnet
ade4, bbmle, fields, forecast, imputeTS, lme4, ncf, nleqslv,
nlme, nlts, plotrix, pomp, rootSolve, Rwave, statnet,
ade4, bbmle, fields, forecast, imputeTS, lme4, ncf, nleqslv,
nlme, nlts, plotrix, pomp, rootSolve, Rwave, rworldmap,
statnet, scatterplot3d
ade4, bbmle, fields, forecast, imputeTS, lme4, ncf, nleqslv,
nlme, nlts, plotrix, polspline, pomp, rootSolve, Rwave,
rworldmap, statnet, scatterplot3d
magrittr, dplyr, tidyr, spdep, emdist, vegan, MASS, emdbook,
knitr, rmarkdown
testthat, knitr, rmarkdown, aplore3, covr
testthat, knitr, rmarkdown, aplore3, directlabels, tidyverse,
lattice, covr
testthat, roxygen2, outbreaks, incidence, knitr, rmarkdown
testthat, roxygen2, outbreaks, incidence (>= 1.4.1), knitr,
rmarkdown
testthat, covr, pkgdown, knitr, rmarkdown
covr, knitr, pkgdown, rmarkdown, testthat
covr, dplyr, ggplot2, knitr, pkgdown, rmarkdown, testthat (>=
2.1.0)
covr, decido, knitr, pkgdown, rgl (>= 0.100.26), rmarkdown,
testthat (>= 2.1.0)
usethis, testthat, covr, knitr, rmarkdown
usethis, testthat, covr, knitr, rmarkdown, vctrs,
testthat, knitr, rmarkdown, lintr, covr, readr
testthat, shiny, DT, mime, readxl, knitr, rmarkdown, covr
testthat, shiny, DT, mime, readxl, ggplot2, ggiraph,
ggiraphExtra, shinycssloaders, shinyWidgets, FSA, PMCMRplus,
knitr, rmarkdown, covr
testthat, shiny, DT, mime, readxl, ggplot2, ggiraph,
ggiraphExtra, knitr, rmarkdown, covr
testthat, shiny, DT, mime, readxl, ggplot2, ggiraph,
ggiraphExtra, FSA, PMCMRplus, knitr, rmarkdown, covr
texPreview, testthat (>= 2.1.0), knitr, MASS, ordinal,
rmarkdown, covr
texPreview, testthat (>= 3.0.0), MASS, ordinal, lme4,
rmarkdown, covr, forecast (>= 8.13), latex2exp (>= 0.4.0),
ggplot2(>= 3.3.2)
covr, shinyWidgets, forecast (>= 8.13), ggplot2 (>= 3.3.3),
latex2exp (>= 0.4.0), lme4, MASS, ordinal, rmarkdown, testthat
(>= 3.0.0), texPreview, gtsummary
tibble, testthat, covr, knitr, rmarkdown, dplyr, spelling,
purrr, tidyr
tibble, testthat, covr, knitr, rmarkdown, dplyr, spelling,
purrr, tidyr, lubridate
coda, KernSmooth, sna, Rglpk, robustbase, Matrix, trust
coda, KernSmooth, sna, Rglpk, robustbase, Matrix
lattice, latticeExtra, sna, Rglpk, snow, latentnet,
networkDynamic
lattice, latticeExtra, sna, Rglpk, snow, networkDynamic,
Rmpi, rlecuyer
lattice, latticeExtra, sna, Rglpk, snow, latentnet
lattice (>= 0.20.38), latticeExtra (>= 0.6.28), sna (>= 2.4),
latentnet (>= 2.9.0), rmarkdown (>= 1.12), knitr (>= 1.22),
Rmpi (>= 0.6.9), testthat (>= 2.1.1), tergm, ergm.count,
ergm.userterms, networkDynamic
lattice (>= 0.20.38), latticeExtra (>= 0.6.28), sna (>= 2.4),
latentnet (>= 2.9.0), rmarkdown (>= 1.12), knitr (>= 1.22),
Rmpi (>= 0.6.9), testthat (>= 2.1.1), magrittr, tergm,
ergm.count, ergm.userterms, networkDynamic
lattice, latticeExtra, sna, latentnet, knitr
lattice, latticeExtra, sna, latentnet, rmarkdown,
ergm.userterms, tergm, Rmpi
lattice, latticeExtra, sna, latentnet, rmarkdown, knitr,
ergm.userterms, Rmpi, testthat
lattice (>= 0.20.41), latticeExtra (>= 0.6.29), sna (>= 2.6),
latentnet (>= 2.10.5), rmarkdown, testthat (>= 3.0.2), tergm
(>= 4.0.0), ergm.count (>= 4.0), networkDynamic (>= 0.10.1),
withr, covr, Rglpk, slam
lattice (>= 0.20.41), latticeExtra (>= 0.6.29), sna (>= 2.6),
rmarkdown, testthat (>= 3.0.2), ergm.count (>= 4.0), withr,
covr, Rglpk, slam
covr, sna, lmtest, fmcmc, coda, knitr, rmarkdown, tinytest
tibble, pillar, testthat, knitr, rmarkdown
dplyr (>= 1.0.0), vctrs (>= 0.3.1), pillar, testthat, knitr,
rmarkdown
officer, rvg, rio, DT, testthat (>= 2.1.0), knitr
officer, rvg, rio, DT, testthat (>= 2.1.0), knitr, ggthemes,
hrbrthemes
officer, rvg, rio, testthat (>= 2.1.0), knitr, ggthemes,
hrbrthemes
officer, rvg, rio, testthat (>= 2.1.0), knitr, rmarkdown,
ggthemes, hrbrthemes
foreign, testthat (>= 2.1.0), knitr, rmarkdown, covr
RcppEigen, fabricatr (>= 0.4), randomizr (>= 0.16), testthat,
sandwich, clubSandwich, margins, prediction, lfe, AER, ivpack,
stargazer, car
fabricatr (>= 0.4), randomizr (>= 0.16), AER, car,
clubSandwich, ivpack, lfe, margins, prediction, RcppEigen,
sandwich, stargazer, testthat
fabricatr (>= 0.4), randomizr (>= 0.16), AER, clubSandwich,
ivpack, lfe, margins, prediction, RcppEigen, sandwich,
stargazer, testthat, car
testthat, sandwich, RcppEigen, fabricatr, randomizr (>= 0.8),
knitr, rmarkdown, margins
fabricatr (>= 0.10.0), randomizr (>= 0.20.0), AER,
clubSandwich, emmeans (>= 1.4), estimability, ivpack, lfe,
margins, prediction, RcppEigen, sandwich, stargazer, testthat,
car
fabricatr (>= 0.10.0), randomizr (>= 0.20.0), AER,
clubSandwich, emmeans (>= 1.4), estimability, ivpack, lfe,
margins, modelsummary, prediction, RcppEigen, sandwich,
stargazer, testthat, car
fabricatr (>= 0.10.0), randomizr (>= 0.20.0), AER,
clubSandwich, emmeans (>= 1.4), estimability, ivpack, margins,
modelsummary, prediction, RcppEigen, sandwich, stargazer,
testthat, car
testthat, sandwich, RcppEigen, fabricatr, randomizr (>= 0.8),
margins, prediction
testthat, sandwich, RcppEigen, fabricatr (>= 0.3), randomizr
(>= 0.9), margins, prediction, AER
RcppEigen, fabricatr (>= 0.3), randomizr (>= 0.15), testthat,
sandwich, clubSandwich, margins, prediction, lfe, AER, ivpack,
stargazer, car
fabricatr (>= 0.10.0), randomizr (>= 0.20.0), AER,
clubSandwich, emmeans (>= 1.4), estimability, margins,
modelsummary, prediction, RcppEigen, sandwich, stargazer,
testthat, car
broom, knitr, pbapply, rmarkdown, tidyr, stringr
knitr, RSQLite, RPostgreSQL, RMySQL, testthat
knitr, RSQLite, RPostgreSQL, RMySQL, ggplot2, testthat
dbplyr, knitr, RSQLite, RPostgreSQL, RMySQL, MonetDBLite,
ggplot2, testthat
devtools, dbplyr, knitr, macleish, RSQLite, RPostgreSQL,
RMySQL, MonetDBLite, ggplot2, testthat, rmarkdown
dbplyr, knitr, macleish, RSQLite, RPostgreSQL, RMySQL,
ggplot2, testthat, rmarkdown
dbplyr, knitr, RSQLite, RPostgreSQL, RMySQL, ggplot2,
testthat, rmarkdown
knitr, MLmetrics, rmarkdown, testthat (>= 3.0.0)
testthat, knitr, rmarkdown, stringr, covr
knitr, pBrackets, RConics, testthat, covr
covr, knitr, pBrackets, RConics, testthat
covr, knitr, lattice, pBrackets, RConics, testthat, spelling,
rmarkdown
covr, knitr, lattice, pBrackets, RConics, rmarkdown,
testthat, spelling
knitr, rmarkdown, tidytext, wordcloud, purrr, ggplot2, glue
knitr, rmarkdown, tidytext, wordcloud, purrr, ggplot2
knitr, rmarkdown, tidytext, wordcloud, purrr, ggplot2,
testthat (>= 3.0.0)
testthat, knitr, rmarkdown, ggplot2, purrr, readr
testthat, knitr, rmarkdown, ggplot2, readr
knitr, mapproj, plotrix, reshape2, rmarkdown, ggplot2,
testthat
devtools, dplyr, ggplot2, knitr, mapproj, plotrix, rvest,
stringi, testthat
dplyr, ggplot2, knitr, mapproj, plotrix, rvest, testthat
dplyr, ggplot2, knitr, mapproj, plotrix, rvest, rmarkdown,
testthat
dplyr, ggplot2, knitr, mapproj, plotrix, rmarkdown, roxygen2,
rvest, testthat
dplyr, Cairo, ggplot2, knitr, mapproj, plotrix, rmarkdown,
roxygen2, rsdmx, rvest, testthat
dplyr, Cairo, ggplot2, knitr, mapproj, plotrix, rmarkdown,
roxygen2, rsdmx, rvest, testthat, tmap
Cairo, ggplot2, knitr, lubridate, mapproj, plotrix,
rmarkdown, roxygen2, rsdmx, rvest, testthat, tmap
Cairo, ggplot2, knitr, lubridate, mapproj, plotrix,
rmarkdown, roxygen2, rsdmx, rvest, testthat, tmap, usethis
Cairo, ggplot2, knitr, mapproj, plotrix, rmarkdown, roxygen2,
rsdmx, rvest, testthat, tmap, usethis
Cairo, ggplot2, knitr, mapproj, plotrix, markdown, rmarkdown,
roxygen2, rsdmx, rvest, testthat, tmap, usethis
RColorBrewer, knitr, rmarkdown, sf, sp, testthat (>= 3.0.0),
remotes
covr, Cairo, ggplot2, knitr, markdown, rmarkdown, roxygen2,
rvest, testthat, tmap, usethis
testthat, rmarkdown, knitr, tufte, microbenchmark
DT, flexdashboard (>= 0.4), modeest, knitr, rmarkdown, shiny,
testthat
DT, pander (>= 0.6.1), psych, ggalt (>= 0.4.0), flexdashboard
(>= 0.4), forcats, statip, knitr, rmarkdown, shiny, testthat
DT, pander (>= 0.6.1), psych, ggalt (>= 0.4.0), flexdashboard
(>= 0.4), forcats, statip, knitr, purrrlyr, rmarkdown (>= 1.9),
shiny, testthat, covr, mockery
DT, pander (>= 0.6.1), psych, ggalt (>= 0.4.0), flexdashboard
(>= 0.4), forcats, statip, knitr, purrrlyr, rmarkdown (>= 1.9),
shiny, testthat, shinytest, EnvStats, covr, mockery
DT, pander (>= 0.6.1), psych, ggalt (>= 0.4.0), flexdashboard
(>= 0.4), forcats, statip, knitr, rmarkdown (>= 1.9), shiny,
testthat, shinytest, EnvStats, covr, mockery
DT, EnvStats, covr, ggalt (>= 0.4.0), knitr, flexdashboard
(>= 0.4), forcats, furrr, mockery, pander (>= 0.6.1), psych,
rmarkdown (>= 1.9), shiny, shinytest, spelling, statip,
testthat
DT, EnvStats, covr, ggalt (>= 0.4.0), knitr, flexdashboard
(>= 0.4), forcats, furrr, markdown, mockery, pander (>= 0.6.1),
psych, rmarkdown (>= 1.9), shiny, shinytest, spelling, statip,
testthat
knitr, rmarkdown, rpact, fitdistrplus, gestate
knitr, rmarkdown, rpact (>= 3.3.1), fitdistrplus, gestate
testthat, prodlim, knitr, rmarkdown, rio, data.table
testthat (>= 0.2), foreach, grid, gridExtra, doParallel
testthat, foreach, magrittr, grid, gridExtra, doParallel
testthat, foreach, magrittr, grid, gridExtra, doParallel,
PHENIX, cowplot
dplyr, testthat, foreach, magrittr, grid, gridExtra,
doParallel, PHENIX, cowplot
dplyr, testthat, foreach, magrittr, grid, gridExtra,
doParallel, cowplot
mlbench, kernlab, multcomp, rpart, party, xtable
Formula, kernlab, lattice, mlbench, multcomp, party, rpart,
xtable
ggplot2, data.table, knitr, rmarkdown, testthat (>= 3.0.0)
testthat, Exact (>= 2.0), ggplot2, grid, gridExtra
dplyr, foreign, knitr, rgdal, rmarkdown, testthat,
dplyr, foreign, knitr, rgdal, rmarkdown, testthat, terra
dplyr, foreign, knitr, ncdf4, rgdal, rmarkdown, testthat,
terra (>= 1.5.17)
testthat, covr, knitr, rmarkdown, spelling, pacman
testthat (>= 2.1.0), covr, knitr, rmarkdown, spelling,
pacman, crayon
covr, crayon, knitr, pacman, rmarkdown, spelling, testthat
(>= 2.1.0)
covr, crayon, knitr, pacman, rmarkdown, spelling, testthat
(>= 2.3.0)
clipr (>= 0.7.0), covr, crayon, knitr, pacman, rmarkdown,
spelling, testthat (>= 2.3.0)
clipr (>= 0.7), covr, crayon, knitr, pacman, rmarkdown,
spelling, testthat (>= 2.1)
base64enc, knitr, parallel, png, RCurl, RJSONIO, rmarkdown,
tth
base64enc, knitr, magick, parallel, png, RCurl, RJSONIO,
rmarkdown, tth
base64enc, knitr, magick, parallel, png, RCurl, RJSONIO,
rmarkdown, tinytex, tth
magick, openxlsx, parallel, png, RCurl, RJSONIO, tinytex,
tth, xml2
testthat, knitr, rmarkdown, devtools, RUnit, pkgload,
rprojroot
covr, knitr, lifecycle, readr, rmarkdown, testthat (>=
3.0.0), withr
INLA (>= 0.0-1468840039), testthat, rgeos, rgdal
INLA (>= 21.08.31), testthat, rgeos, rgdal
knitr, revdbayes, rmarkdown, testthat, zoo (>= 1.6.4)
covr, dplyr, ggplot2, httptest, knitr, rmarkdown, scales,
testthat (>= 3.0.0)
knitr, rmarkdown, testthat (>= 2.1.0), covr, BiocStyle, MASS,
spelling
knitr, rmarkdown, testthat (>= 2.1.0), covr, MASS, spelling
FactoMineR, ade4, testthat, knitr, rmarkdown
FactoMineR, ade4, GDAtools, MASS, testthat, knitr, rmarkdown
FactoMineR, ade4 (>= 1.7-5), GDAtools, MASS, testthat, knitr,
rmarkdown
FactoMineR, ade4 (>= 1.7-13), GDAtools, MASS, testthat,
knitr, rmarkdown
FactoMineR, ade4 (>= 1.7-13), GDAtools, MASS, quanteda,
quanteda.textmodels, testthat, knitr, rmarkdown
Biobase, GEOquery, h2o, golubEsets, knitr, limma, magrittr,
rmarkdown, testthat
GEOquery, h2o, golubEsets, knitr, limma, magrittr, rmarkdown,
testthat
Biobase, edgeR, GEOquery, h2o, knitr, limma, mRMRe,
pathClass, propr, rmarkdown, testthat
Biobase, edgeR, GEOquery, h2o, knitr, limma, magrittr, mRMRe,
pathClass, propr, rmarkdown, testthat
Biobase, edgeR, GEOquery, h2o, knitr, limma, magrittr, mRMRe,
pathClass, propr, RankProd, rmarkdown, testthat
balance, Biobase, edgeR, GEOquery, h2o, knitr, limma,
magrittr, mRMRe, pathClass, propr, RankProd, rmarkdown,
testthat
balance, Biobase, edgeR, GEOquery, h2o, knitr, limma,
magrittr, mRMRe, propr, RankProd, rmarkdown, testthat, vegan
DT, htmltools, knitr, repr, ggplot2, testthat, openxlsx, fst,
huxtable, rmarkdown
DT, htmltools, knitr, rmarkdown, repr, ggplot2, testthat,
openxlsx, fst, huxtable
foreign, DT, htmltools, knitr, rmarkdown, repr, ggplot2,
testthat, openxlsx, fst, huxtable
DT, htmltools, knitr, repr, ggplot2, testthat, openxlsx
DT, htmltools, knitr, repr, ggplot2, testthat
DT, htmltools, knitr, repr, ggplot2, testthat, openxlsx, fst
pander, knitr, rmarkdown, testthat, tidyr
testthat, LaplacesDemon, VGAM, evd, hoa, skellam, triangle,
actuar
JGR, iplots, iWidgets, vcd, ca, multicore
JGR, iplots, vcd, ca, amap, rgl, dataframe, Acinonyx
covr, hms, knitr, rlang, testthat, tibble
covr, hms, knitr, rlang, testthat (>= 3.0.0), tibble
covr, hms, knitr, MASS, rlang, rmarkdown, testthat (>=
3.0.0), tibble
knitr, rmarkdown, covr, testthat, withr, gridExtra
testthat, knitr, rmarkdown, dplyr, ggplot2, tidyr
testthat, knitr, rmarkdown, dplyr, ggplot2, tidyr, covr
pbapply, knitr, lme4 (>= 1.1-9), Matrix, testthat, rmarkdown
pbapply, knitr, lme4 (>= 1.1-9), Matrix, testthat, rmarkdown,
doMC, foreach
pbapply, knitr, lme4 (>= 1.1-10), Matrix, testthat,
rmarkdown, doMC, foreach
pbapply, knitr, lme4 (>= 1.1-10), glmmTMB, MASS, Matrix,
testthat, rmarkdown, doMC, foreach
covr (>= 3.2.1), testthat (>= 2.1.0), roxygen2 (>= 6.1.1),
knitr, rmarkdown
covr (>= 3.2.1), testthat (>= 2.1.0), roxygen2 (>= 6.1.1),
knitr, rmarkdown, future, furrr
covr (>= 3.2.1), furrr, future, knitr, rmarkdown, roxygen2
(>= 6.1.1), testthat (>= 2.1.0), prettydoc
testthat, knitr, rmarkdown, webshot, covr
testthat, knitr, rmarkdown, webshot, striprtf, xml2,
tesseract, dplyr, rvest, docxtractr, antiword, covr
testthat, knitr, rmarkdown, striprtf, xml2, tesseract, dplyr,
rvest, docxtractr, antiword, covr
testthat, knitr, striprtf, xml2, tesseract, dplyr, rvest,
docxtractr, antiword, covr
testthat, knitr, striprtf, xml2, dplyr, rvest, antiword, covr
knitr, lubridate, methods, rmarkdown, ROCR, testthat, tibble,
tidyr, covr
covr, knitr, lubridate, methods, psych, rmarkdown, ROCR,
stats, testthat, tibble, tidyr, tsibbledata
covr, DT, knitr, lubridate, methods, miniUI, psych,
rmarkdown, ROCR, shiny, stats, testthat, tibble, tidyr,
tsibbledata
covr, DT, knitr, methods, miniUI, psych, rmarkdown, ROCR,
shiny, stats, testthat, tibble, tidyr, tsibbledata
covr, DT, e1071, knitr, methods, miniUI, rmarkdown, ROCR,
shiny, stats, testthat, tibble, tidyr, tsibbledata
covr, DT, e1071, knitr, methods, miniUI, rmarkdown, ROCR,
shiny, stats, testthat, tibble, tidyr, tsibble, tsibbledata
methods, mnormt, ecodist, mvnormtest, energy, RUnit
parallel, doSNOW, rmarkdown, knitr, testthat (>= 3.0.0),
covr, printr, tseries
parallel, doSNOW, rmarkdown, knitr, testthat (>= 3.0.0),
covr, printr, tseries, spelling
corpcor, cowplot, ciftiTools, gifti, knitr, rmarkdown,
RNifti, ggplot2, gsignal, fastICA, oro.nifti, testthat (>=
3.0.0), covr
corpcor, cowplot, ciftiTools, knitr, rmarkdown, RNifti,
ggplot2, ggpubr, ica, neurobase, oro.nifti, gridExtra, testthat
(>= 2.1.0), covr
ciftiTools, gifti, knitr, rmarkdown, RNifti, oro.nifti,
gsignal, fastICA, testthat (>= 3.0.0), covr
Rsocp, Rnlminb2, Rdonlp2, dplR, bcp, fGarch, mvoutlier
Rsocp, Rnlminb2, Rdonlp2, Rsymphony, dplR, bcp, fGarch,
mvoutlier
covr, feasts, forecast, knitr, nnet, rmarkdown, spelling,
testthat, tsibbledata
covr, feasts, forecast, knitr, nnet, rmarkdown, spelling,
testthat, tsibbledata (>= 0.2.0)
tsibbledata, testthat, ggplot2, covr, knitr, rmarkdown
colorspace, covr, crayon, digest, fable, furrr, knitr,
methods, tibble (>= 1.4.1), pillar (>= 1.0.1), feasts,
rmarkdown, scales, spelling, testthat, tsibbledata, lubridate,
SparseM
colorspace, covr, crayon, digest, fable, furrr, knitr,
methods, pillar (>= 1.0.1), feasts, rmarkdown, scales,
spelling, testthat, tsibbledata, lubridate, SparseM
colorspace, covr, crayon, digest, fable, future.apply, knitr,
methods, pillar (>= 1.0.1), feasts (>= 0.1.2), rmarkdown,
scales, spelling, testthat, tsibbledata, lubridate, SparseM
covr, crayon, digest, fable (>= 0.2.0), future.apply, knitr,
methods, pillar (>= 1.0.1), feasts (>= 0.1.2), rmarkdown,
scales, spelling, testthat, tsibbledata (>= 0.2.0), lubridate,
SparseM
covr, crayon, fable (>= 0.2.0), future.apply, knitr, pillar
(>= 1.0.1), feasts (>= 0.1.2), rmarkdown, spelling, testthat,
tsibbledata (>= 0.2.0), lubridate, Matrix
testthat, data.table, mvnfast, MASS, extraDistr
testthat, dplyr, knitr, rmarkdown, data.table, mvnfast,
diagram
LSD (>= 4.0-0), coda (>= 0.19-2), knitr, RColorBrewer,
testthat (>= 2.1.0)
LSD (>= 4.0-0), coda (>= 0.19-2), knitr, RColorBrewer,
testthat (>= 2.1.0), zoo
LSD (>= 4.0-0), coda (>= 0.19-2), knitr, RColorBrewer
testthat (>= 2.1.0), covr, roxygen2, knitr, rmarkdown,
ggplot2
testthat (>= 2.1.0), knitr, rmarkdown, markdown, data.table,
rticles, mvtnorm
testthat (>= 3.0.3), knitr, rmarkdown, markdown, data.table,
rticles, mvtnorm, magick, ggraph, pdftools
testthat (>= 3.0.3), knitr, rmarkdown, rticles, mvtnorm,
magick, ggraph, pdftools, microbenchmark, xtable
ranger, gbm, knitr, rmarkdown, covr, testthat, spelling
ranger, gbm, knitr, rmarkdown, covr, testthat, spelling,
ggdendro, ggrepel,
knitr, rmarkdown, testthat, RUnit, devtools, rprojroot,
roxygen2, hunspell, cleanr, lintr, covr
cleanr, covr, cyclocomp, devtools, hunspell, knitr, lintr,
packager (>= 1.5.0), pkgbuild, pkgload, rasciidoc, rmarkdown,
roxygen2, rprojroot, RUnit, spelling, testthat, withr, usethis
knitr, rmarkdown, testthat, RUnit, devtools, usethis,
rprojroot, roxygen2, hunspell, cleanr, lintr, covr, cyclocomp
knitr, rmarkdown, testthat, RUnit, devtools, usethis,
rprojroot, roxygen2, hunspell, cleanr, lintr, covr, cyclocomp,
spelling
knitr, rmarkdown, testthat, RUnit, devtools, usethis,
rprojroot, roxygen2, hunspell, cleanr, lintr, covr, cyclocomp,
spelling, pkgbuild
knitr, rmarkdown, testthat, RUnit, devtools, usethis,
rprojroot, roxygen2, hunspell, cleanr, lintr, covr, cyclocomp,
spelling, pkgbuild, pkgload
cleanr, covr, cyclocomp, devtools, hunspell, knitr, lintr,
pkgbuild, pkgload, rmarkdown, roxygen2, rprojroot, RUnit,
spelling, testthat, usethis
cleanr, covr, cyclocomp, devtools, hunspell, knitr, lintr,
packager (>= 1.5.0), pkgbuild, pkgload, rmarkdown, roxygen2,
rprojroot, RUnit, spelling, testthat, usethis
cleanr, covr, cyclocomp, devtools, hunspell, knitr, lintr,
packager (>= 1.5.0), pkgbuild, pkgload, rmarkdown, roxygen2,
rprojroot, RUnit, spelling, testthat, withr, usethis
BART, callr (>= 3.4.3), cluster, CORElearn, cowplot,
dynamicTreeCut, e1071 (>= 1.7.5), Ecdat, fastcluster, ggplot2
(>= 3.0.0), glmnet, gtable, harmonicmeanp, isotree (>= 0.3.0),
knitr, labeling, laGP, MASS, maxstat, mboost (>= 2.9.0),
microbenchmark, partykit, proxy, qvalue, randomForestSRC,
ranger, rmarkdown, scales, testthat (>= 3.0.0), xml2, VGAM,
xgboost
BART, callr (>= 3.4.3), cluster, CORElearn, coro, cowplot,
dynamicTreeCut, e1071 (>= 1.7.5), Ecdat, fastcluster, ggplot2
(>= 3.0.0), glmnet, gtable, harmonicmeanp, isotree (>= 0.3.0),
knitr, labeling, laGP, MASS, maxstat, mboost (>= 2.9.0),
microbenchmark, partykit, proxy, qvalue, randomForestSRC,
ranger, rmarkdown, scales, testthat (>= 3.0.0), xml2, VGAM,
xgboost
BART, callr (>= 3.4.3), cluster, CORElearn, coro, cowplot,
dynamicTreeCut, e1071 (>= 1.7.5), Ecdat, fastcluster, fastglm,
ggplot2 (>= 3.0.0), glmnet, gtable, harmonicmeanp, isotree (>=
0.3.0), knitr, labeling, laGP, MASS, maxstat, mboost (>=
2.9.0), microbenchmark, nnet, partykit, praznik, proxy, qvalue,
randomForestSRC, ranger, rmarkdown, scales, testthat (>=
3.0.0), xml2, VGAM, xgboost
BART, callr (>= 3.4.3), cluster, CORElearn, coro,
dynamicTreeCut, e1071 (>= 1.7.5), Ecdat, fastcluster, fastglm,
ggplot2 (>= 3.0.0), glmnet, gtable, harmonicmeanp, isotree (>=
0.3.0), knitr, labeling, laGP, MASS, maxstat, mboost (>=
2.9.0), microbenchmark, nnet, partykit, praznik, proxy, qvalue,
randomForestSRC, ranger, rmarkdown, scales, testthat (>=
3.0.0), xml2, VGAM, xgboost
RPostgres, knitr, rmarkdown, testthat (>= 3.0.0), spelling
tidyverse, knitr, rmarkdown, bookdown, testthat (>= 3.0.0)
testthat (>= 2.1.0), knitr, rmarkdown, covr, spelling
reticulate, covr, knitr, rmarkdown, testthat (>= 3.0.0)
knitr, rmarkdown, testthat (>= 3.0.0), spelling, mgcv,
ngspatial, MASS
MASS, faraway, Hmisc, DAAG, multcomp, vcd, car, alr3,
corrgram, BradleyTerry2, cubature, Devore7, knitr
MASS, faraway, Hmisc, DAAG, multcomp, vcd, car, alr3,
corrgram, BradleyTerry, cubature, Devore6
MASS, faraway, Hmisc, DAAG, multcomp, vcd, car, alr3,
corrgram, BradleyTerry2, cubature, Devore6
MASS, faraway, Hmisc, DAAG, multcomp, vcd, car, alr3,
corrgram, BradleyTerry2, cubature, Devore6, knitr
mosaicCalc, tidyr, readr, MASS, faraway, Hmisc, DAAG,
multcomp, vcd, car, alr3, corrgram, BradleyTerry2, cubature,
knitr, mosaicData, rmarkdown
ggformula, mosaicCalc, tidyr, readr, MASS, faraway, Hmisc,
DAAG, multcomp, vcd, car, alr3, corrgram, BradleyTerry2,
cubature, knitr, mosaicData, rmarkdown
ggformula, mosaicCalc, tidyr, readr, MASS, faraway, Hmisc,
DAAG, multcomp, vcd, car, alr4, corrgram, BradleyTerry2,
cubature, knitr, mosaicData, rmarkdown
covr, dplyr, ggplot2, knitr, rmarkdown, testthat (>= 2.1.0)
covr, dplyr, ggplot2, knitr, magrittr, rmarkdown, testthat
(>= 3.0.0)
crayon (>= 1.3.4), curl, DBI, furrr, future, ggplot2,
ggrepel, qs (>= 0.25.1), rmarkdown, RSQLite, stringi, stats,
testthat, usethis (>= 1.6.0), xml2 (>= 1.3)
NNLM, Ternary, testthat, knitr, rmarkdown
invertiforms, covr, knitr, rmarkdown, testthat
invertiforms, covr, knitr, rmarkdown, testthat (>= 3.0.0)
knitr, testthat, rmarkdown, curl, magrittr, data.table,
vctrs, stats, utils
knitr, testthat, rmarkdown, curl, magrittr, data.table,
vctrs, stats, utils, R.utils
knitr, testthat, rmarkdown, curl, magrittr, data.table,
vctrs, stats, utils, R.utils, nandb, viridis, zeallot
knitr, testthat, rmarkdown, curl, magrittr, data.table,
vctrs, stats, utils, R.utils, viridis, zeallot
testthat, microbenchmark, knitr, rmarkdown, sf
knitr, rmarkdown, testthat (>= 2.1.0), covr, microbenchmark
earth, mlbench, tinytest, covr, knitr, rmarkdown
AmesHousing, covr, earth, htmltools, knitr, ranger,
reticulate, rmarkdown, rstudioapi, tinytest, titanic, xgboost
AmesHousing, covr, earth, htmltools, knitr, lightgbm, ranger,
reticulate (>= 1.14), rmarkdown, rstudioapi, tinytest, titanic,
xgboost
xts, roll, lubridate, fasttime, dygraphs, stringi, Rfast,
Rfast2, parallelDist, coop, tidyfast, knitr, rmarkdown
xts, roll, fasttime, lubridate, dygraphs, stringi,
stringfish, stringdist, Rfast, Rfast2, parallelDist, coop, qs,
tidyfast, maditr, knitr, rmarkdown
xts, roll, fasttime, lubridate, dygraphs, stringi,
stringfish, Rfast, Rfast2, coop, rrapply, qs, tidyfast, maditr,
knitr, rmarkdown
xts, roll, fasttime, lubridate, dygraphs, stringi,
stringfish, Rfast, Rfast2, coop, rrapply, geos, qs, tidyfast,
maditr, knitr, rmarkdown
matrixStats, Rfast, arrow, duckdb, qs, fst, xts, roll,
anytime, fasttime, stringi, stringfish, coop, rrapply, geos,
lubridate, knitr, rmarkdown
testthat (>= 2.1.0), tidyr, knitr, rmarkdown, roxygen2, covr,
cowplot, ggExtra, purrr, broom, broom.mixed
testthat (>= 2.1.0), tidyr, knitr, rmarkdown, roxygen2, covr,
cowplot, ggExtra, purrr, broom, broom.mixed, psych
testthat (>= 2.1.0), tidyr, knitr, rmarkdown, roxygen2, covr,
cowplot, ggExtra, purrr, broom, broom.mixed, psych, lmerTest,
kableExtra, glue, openssl, readr
covr, dplyr, intrval, knitr, rmarkdown, roxygen2, testthat,
tidyr
covr, intrval, knitr, rmarkdown, roxygen2, testthat, tibble,
tidyr, vctrs
covr, dplyr, intrval, knitr, magrittr, rmarkdown, roxygen2,
testthat, tibble, tidyr, vctrs, withr
covr, dplyr, haven, knitr, magrittr, rmarkdown, testthat (>=
3.0.0), tibble, tidyr, vctrs, withr
crul (>= 0.5.0), curl (>= 2.2), httr (>= 1.2.0), testthat,
knitr, rmarkdown
RJSONIO, RCurl, httr, XML, Rlab, xtable, lme4, tcltk
RJSONIO, RCurl, httr, XML, Rlab, xtable, tcltk, speedglm,
glmnet
knitr, rmarkdown, testthat, tidyverse, Rglpk, ROI.plugin.glpk
knitr, rmarkdown, testthat, tidyverse, Rglpk,
ROI.plugin.ecos, ROI.plugin.glpk
spelling, jsonlite, curl, knitr, rmarkdown, testthat
covr, rmarkdown, testthat (>= 2.1.0), parallel
arules, covr, hasseDiagram, knitr, markdown, rmarkdown,
testthat (>= 2.1.0), parallel
arules, covr, hasseDiagram, knitr, markdown, rmarkdown,
testthat (>= 2.1.0), tictoc, parallel
stats, knitr, rmarkdown, digest, testthat (>= 3.0.0)
graphics, odesolve, R.matlab, quadprog, DierckxSpline, nlme
graphics, odesolve, R.matlab, quadprog, DierckxSpline, nlme,
lattice
graphics, odesolve, R.matlab, quadprog, DierckxSpline, nlme,
lattice, RCurl
deSolve, graphics, R.matlab, quadprog, DierckxSpline, nlme,
lattice, RCurl
deSolve, R.matlab, quadprog, DierckxSpline, nlme, lattice,
RCurl, zoo
deSolve, R.matlab, quadprog, nlme, lattice, RCurl, zoo
MASS, Rcpp (>= 0.11.5), Matrix, pracma, numDeriv, testthat
plot3D, rgl, aplpack, mgcv, ks, MASS, gtools, knitr, Rmixmod,
minqa, testthat
plot3D, rgl, aplpack, mgcv, ks, gtools, knitr, EMCluster,
minqa, testthat
plot3D, rgl, aplpack, mgcv, ks, gtools, knitr, rmarkdown,
EMCluster, minqa, testthat
rtdists, RWiener, ggplot2, reshape2, testthat, knitr,
rmarkdown, microbenchmark, ggnewscale
rtdists, RWiener, ggplot2, reshape2, testthat, knitr,
rmarkdown, microbenchmark, ggnewscale, ggforce
rtdists, RWiener, ggplot2, reshape2, testthat, knitr,
rmarkdown, microbenchmark, ggnewscale, ggforce, WienR
arulesViz, car, caret, class, cluster, datasets, e1071, fds,
flexclust, fpc, glmnet, graphics, grDevices, ibr, irr, kohonen,
leaps, MASS, mda, meanShiftR, methods, questionr, randomForest,
ROCR, rpart, rpart.plot, Rtsne, SnowballC, stats, text2vec,
stopwords, utils, wordcloud, xgboost
car, caret, class, cluster, datasets, e1071, fds, flexclust,
fpc, glmnet, graphics, grDevices, ibr, irr, kohonen, leaps,
MASS, mda, meanShiftR, methods, questionr, randomForest, ROCR,
rpart, rpart.plot, Rtsne, SnowballC, stats, text2vec,
stopwords, utils, wordcloud, xgboost
rmarkdown, knitr, GEOquery, dplyr, foreach
tsibbledata, pillar (>= 1.0.1), knitr, rmarkdown, testthat,
covr, grid, seasonal, urca, fracdiff, fable, ForeCA
tsibbledata, pillar (>= 1.0.1), knitr, rmarkdown, testthat,
covr, seasonal, urca, fracdiff, fable, ForeCA
tsibbledata, pillar (>= 1.0.1), knitr, rmarkdown, testthat,
covr, seasonal, urca, fracdiff, fable
tsibbledata, pillar (>= 1.0.1), knitr, rmarkdown, testthat,
covr, seasonal, urca, fracdiff, fable, ggrepel
png, knitr, Metrics, mlr, gbm, randomForest
bookdown, DT, lattice, latticeExtra, magrittr, pander, rgdal
bookdown, DT, knitr, lattice, latticeExtra, magrittr, pander,
rgdal
curl, rmarkdown, jsonlite, sf, stringr, knitr
testthat (>= 2.1.0), scales, knitr, rmarkdown, fs, lubridate,
vroom, ggplot2, stringr, usethis, utf8
testthat (>= 2.1.0), scales, knitr, rmarkdown, fs, lubridate,
ggplot2, stringr, usethis, utf8
texreg, testthat, knitr, rmarkdown, ggplot2
texreg (>= 1.37.1), testthat, knitr, rmarkdown, ggplot2
knitr, pkgdown, printr, rmarkdown, roxygen2, testthat (>=
2.1.0), covr
knitr, pkgdown, printr, roxygen2, testthat (>= 2.1.0), covr
knitr, printr, testthat (>= 2.1.0), covr, rmarkdown
roxygen2, covr, pkgdown, testthat, forcats, patchwork
covr, knitr (>= 1.33), markdown, roxygen2, spelling, testthat
(>= 3.0.0)
covr, knitr (>= 1.37), markdown, roxygen2, spelling, testthat
(>= 3.1.2), xts (>= 0.12.1)
copula, covr, ghyp, knitr (>= 1.40), markdown, rmarkdown,
roxygen2, spelling, testthat (>= 3.1.4), xts (>= 0.12.1)
covr (>= 3.0.0), httptest (>= 3.0.0), knitr, rmarkdown,
testthat (>= 2.1.0)
covr (>= 3.0.0), httptest (>= 3.0.0), knitr, rmarkdown,
testthat (>= 2.1.0), checkmate
testthat, knitr, rmarkdown, geojsonio, broom, rmapshaper,
rgeos, mapproj, ggplot2, stringr, glue, lubridate, readxl, zoo,
crayon, fs, utils
testthat, knitr, rmarkdown, geojsonio, broom, rmapshaper,
rgeos, mapproj, ggplot2, stringr, glue, lubridate, readxl, zoo,
crayon, fs, utils, sp
testthat, knitr, rmarkdown, geojsonio, broom, rmapshaper,
rgeos, mapproj, ggplot2, stringr, glue, lubridate, readxl, zoo,
crayon, fs, utils, sp, forcats
testthat, knitr, rmarkdown, geojsonio, broom, rmapshaper,
rgeos, mapproj, ggplot2, stringr, glue, lubridate, readxl, zoo,
crayon, fs, utils, sp, forcats, ncdf4, SDMTools, reshape2
knitr, rmarkdown, testthat, msm(>= 1.6.6), flexsurv, sn,
gapminder, GGally
testthat (>= 2.1.0), knitr, rmarkdown, ape, numDeriv,
MCMCpack, MicrobeDS
testthat (>= 2.1.0), knitr, rmarkdown, ape, numDeriv,
MCMCpack, MicrobeDS, phyloseq
knitr, rmarkdown, kableExtra, imager, RStoolbox,
randomForest, rgdal
knitr, rmarkdown, kableExtra, imager, randomForest, rgdal,
RStoolbox
knitr, rmarkdown, kableExtra, imager, randomForest, rgdal,
RStoolbox, foreign, maptools
knitr, rmarkdown, mapproj, ggplot2, dplyr, testthat,
colorplaner
RColorBrewer, knitr, rmarkdown, tidyverse, latex2exp
reticulate, spelling, stevedore, testthat (>= 3.0.0), withr
testthat, covr, knitr, rmarkdown, spelling, dplyr
testthat (>= 2.1.0), covr, knitr, rmarkdown, spelling, dplyr
covr, dplyr, knitr, rmarkdown, spelling, testthat (>= 2.1.0)
covr, dplyr, knitr, rmarkdown, spelling, testthat (>= 2.1)
covr, cmprsk, knitr, rlang, rmarkdown, rstan, survey,
testthat
covr, cmprsk, knitr, readr, rlang, rmarkdown, rstan, survey,
testthat
cmprsk, knitr, readr, rlang, rmarkdown, rstan, survey,
survminer, testthat, tibble
cmprsk, coxme, knitr, readr, rlang, rmarkdown, rstan, survey,
survminer, testthat, tibble
cmprsk, coxme, knitr, lmtest, readr, rlang, rmarkdown, rstan,
sandwich, survey, survminer, testthat, tibble
codemetar, data.tree, ISOcodes, knitr, rmarkdown, ows4R, sf,
stats, testthat (>= 2.1.0), usethis, vcr, vdiffr
codemetar, data.tree, details, ISOcodes, knitr, rmarkdown,
ows4R, sf, stats, testthat (>= 2.1.0), usethis, vcr, vdiffr
codemetar, data.tree, details, ISOcodes, knitr, ows4R,
rmarkdown, sf, stats, testthat (>= 2.1.0), usethis, vcr, vdiffr
codemetar, data.tree, details, ISOcodes, knitr, pkgdown,
rmarkdown, stats, testthat (>= 2.1.0), usethis, vcr, vdiffr
knitr, rmarkdown, testthat (>= 2.1.0), vcr, vdiffr
knitr, grDevices, rmarkdown, testthat (>= 2.1.0), vcr
future, grDevices, knitr, rmarkdown, testthat (>= 2.1.0), vcr
data.table, dplyr, future, grDevices, knitr, readODS, readxl,
rmarkdown, testthat (>= 2.1.0), tidyr, vcr
data.table, dplyr, future, grDevices, knitr, readODS, readxl,
rmarkdown, testthat (>= 2.1.0), tidyr, vcr, webfakes
data.table, dplyr, future, gert, grDevices, here, knitr,
readODS, readxl, rmarkdown, testthat (>= 2.1.0), tidyr, vcr,
webfakes
shinyAce, shinyWidgets, shinyjqui, shinyFiles, shinyvalidate,
fs
spelling, BradleyTerry2, lme4, rsample, recipes (>= 0.1.15),
modeldata, rpart, parsnip, testthat, covr, discrim, klaR
BradleyTerry2, covr, discrim, klaR, lme4, modeldata, parsnip,
recipes (>= 0.1.15), rpart, rsample, spelling, testthat
BradleyTerry2, covr, discrim, klaR, lme4, modeldata, parsnip,
ranger, recipes (>= 0.1.15), rpart, rsample, spelling,
testthat, yardstick
BradleyTerry2, covr, discrim, klaR, lme4, modeldata, parsnip
(>= 0.2.1), ranger, recipes (>= 0.2.0), rpart, rsample,
spelling, testthat, yardstick
BradleyTerry2, covr, discrim, kknn, klaR, lme4, modeldata,
ranger, recipes (>= 0.2.0), rpart, rsample, spelling, testthat,
yardstick
knitr, rmarkdown, testthat, ggplot2, pander, DT, curl
knitr, rmarkdown, testthat, ggplot2, pander, curl
curl, ggplot2, knitr, pander, rmarkdown, testthat
ggplot2, knitr, pander, rmarkdown, testthat
gdtools, knitr, rmarkdown, testthat, vdiffr
knitr, reactable, rmarkdown, testthat (>= 3.0.0)
knitr, reactable, rmarkdown, sparklyr, testthat (>= 3.0.0)
testthat (>= 3.0.0), mockery (>= 0.4.2), sfheaders, covr
knitr, rmarkdown, reshape2, truncnorm, xtable
knitr, rmarkdown, dplyr, magrittr, dm, ggplot2, tidyr,
DiagrammeRsvg, DiagrammeR
rfishbase, hisse, geiger, knitr, rmarkdown
rfishbase, hisse, geiger, knitr, rmarkdown, picante, spelling
rfishbase, hisse, geiger, knitr, rmarkdown, picante,
spelling, testthat
diversitree, geiger, hisse (>= 1.9.10), knitr, phytools,
picante, rfishbase, rmarkdown, spelling, testthat
diversitree, geiger, hisse (>= 1.9.10), knitr, markdown,
phytools, picante, rfishbase, rmarkdown, spelling, testthat
hexbin (>= 1.27.0), testthat, knitr, rmarkdown, rfishbase,
rnaturalearth, pkgdown
testthat, knitr, rmarkdown, rfishbase, rnaturalearth, pkgdown
knitr, ggplot2, prettydoc, reshape2, rmarkdown, R.rsp,
testthat
CopernicusDEM, testthat (>= 3.0.0), knitr, rmarkdown, DT,
rgl, magick
CopernicusDEM, testthat (>= 3.0.0), knitr, rmarkdown, DT,
rgl, magick, rgdal (>= 1.5-23)
covr, checkmate (>= 2.0.0), spelling, testthat (>= 3.0.0)
actuar, rgenoud, mc2d, gamlss.dist, knitr, knitcitations,
ggplot2, GeneralizedHyperbolic
actuar, rgenoud, mc2d, gamlss.dist, knitr, knitcitations
actuar, rgenoud, mc2d, gamlss.dist, knitr, knitcitations,
ggplot2
actuar, rgenoud, mc2d, gamlss.dist, knitr, ggplot2,
GeneralizedHyperbolic, rmarkdown, Hmisc
actuar, ald, benchden, BiasedUrn, bridgedist, Davies,
DiscreteInverseWeibull, DiscreteLaplace, DiscreteWeibull,
emdbook, emg, EnvStats, evd, evir, ExtDist, extremefit, FAdist,
FatTailsR, fBasics, fExtremes, flexsurv, gambin, gb,
GenBinomApps, GeneralizedHyperbolic, gld, GLDEX, glogis, GSM,
hermite, HyperbolicDist, ihs, KScorrect, loglognorm, marg,
mc2d, minimax, msm, nCDunnett, NormalLaplace, normalp,
ParetoPosStable, PearsonDS, poistweedie, polyaAeppli, qmap,
QRM, ReIns, reliaR, Renext, revdbayes, RMKdiscrete, RMTstat,
sadists, skellam, SkewHyperbolic, skewt, SMR, sn, stabledist,
STAR, statmod, trapezoid, triangle, truncnorm, VarianceGamma
actuar, ald, benchden, BiasedUrn, bridgedist, Davies,
DiscreteInverseWeibull, DiscreteLaplace, DiscreteWeibull,
emdbook, emg, EnvStats, evd, evir, ExtDist, extremefit, FAdist,
FatTailsR, fBasics, fExtremes, flexsurv, gambin, gb,
GenBinomApps, GeneralizedHyperbolic, gld, GLDEX, glogis, GSM,
hermite, HyperbolicDist, KScorrect, loglognorm, marg, mc2d,
minimax, msm, nCDunnett, NormalLaplace, normalp,
ParetoPosStable, PearsonDS, poistweedie, polyaAeppli, qmap,
QRM, ReIns, reliaR, Renext, revdbayes, RMKdiscrete, RMTstat,
sadists, skellam, SkewHyperbolic, skewt, SMR, sn, stabledist,
STAR, statmod, trapezoid, triangle, truncnorm, VarianceGamma
covr, ggplot2, knitr, rmarkdown, testthat, roxygen2, elo,
spelling
covr, ggplot2, knitr, rmarkdown, testthat, roxygen2, elo,
spelling, curl
covr, ggplot2, knitr, rmarkdown, testthat, roxygen2,
spelling, curl
covr, elo, ggplot2, knitr, rmarkdown, testthat, roxygen2,
spelling, curl
knitr, rmarkdown, dplyr, readr, ggplot2, broom, magrittr,
scales, stringr, ggthemes
knitr, rmarkdown, dplyr, readr, ggplot2, broom, magrittr,
scales, stringr, tidytext, hunspell, ggthemes, lubridate, grid,
fmsb, wordcloud, gridExtra, fivethirtyeight, tidyverse
fivethirtyeight, tidyverse, lubridate, stringr, magrittr,
knitr, rmarkdown, broom, scales, tidytext, ggthemes, hunspell,
grid, fmsb, wordcloud, gridExtra, corrplot, ggraph, igraph,
highcharter
fivethirtyeight, tidyverse, lubridate, stringr, magrittr,
knitr, rmarkdown, broom, scales, tidytext, ggthemes, hunspell,
grid, fmsb, wordcloud, gridExtra, corrplot, ggraph, igraph,
highcharter, janitor
ggplot2, dplyr, tidyr, curl, readr, tibble, lubridate,
stringr, janitor, knitr, gridExtra, ggthemes, scales, broom,
magrittr, rmarkdown
ggplot2, dplyr, tidyr (>= 1.0.0), readr, tibble, stringr,
broom, knitr, rmarkdown, gridExtra, curl, fivethirtyeightdata
ggplot2, dplyr, tidyr (>= 1.0.0), readr, tibble, stringr,
broom, knitr, rmarkdown, patchwork, fivethirtyeightdata
knitr, rmarkdown, rb3, dplyr, testthat (>= 3.0.0)
knitr, rmarkdown, data.table, plm, MASS, pander, ggplot2, lfe
knitr, rmarkdown, data.table, plm, MASS, pander, ggplot2,
lfe, tinytex, pdftools
knitr, rmarkdown, data.table, plm, lfe, MASS
knitr, rmarkdown, data.table, plm, MASS, pander
knitr, rmarkdown, data.table, plm, MASS, pander, ggplot2
devtools, e1071, expm, lhs, MASS, Matrix, mda, mlbench, mlr,
numDeriv, parallel, parallelMap, plyr, RANN, rpart, shape,
smoof, testthat
devtools, e1071, expm, lhs, MASS, Matrix, mda, mlbench,
numDeriv, parallel, parallelMap, plyr, RANN, rpart, shape,
smoof, testthat
devtools, e1071, expm, lhs, MASS, Matrix, mda, mlbench,
numDeriv, parallel, parallelMap, ParamHelpers, plyr, RANN,
rpart, shape, shiny, smoof, testthat
devtools, e1071, expm, ggplot2, lhs, MASS, Matrix, mda,
mlbench, numDeriv, parallel, parallelMap, ParamHelpers, plotly,
plyr, RANN, rpart, shape, shiny, smoof, testthat
devtools, e1071, expm, ggplot2, lhs, MASS, Matrix, mda,
mlbench, numDeriv, parallel, parallelMap, ParamHelpers, plotly,
plyr, RANN, R.rsp, rpart, shape, shiny, smoof, testthat
devtools, e1071, ggplot2, lhs, MASS, Matrix, mda, mlbench,
numDeriv, parallel, parallelMap, ParamHelpers, plotly, plyr,
RANN, R.rsp, rpart, shape, shiny, smoof, testthat
tidyr, eurostat, knitr, rmarkdown, testthat
learnr, rstudioapi, shiny, testthat (>= 2.1.0)
knitr, lubridate, ranger, xgboost, caret, moderndive
knitr, rmarkdown, testthat, ranger, xgboost, moderndive,
caret, mlr3, mlr3learners
knitr, caret, mlr3, mlr3learners, moderndive, ranger,
rmarkdown, testthat, xgboost
mockery, covr, fansi, fs, knitr, parsedate, rmarkdown,
rstudioapi, testthat (>= 3.0.0), brio, callr, pkgload
ellipse, clue, cluster, seriation, multicore
ellipse, clue, cluster, seriation, multicore, snow
ellipse, clue, cluster, seriation, skmeans
MASS, codetools, ellipse, gclus, grid, lme4, mgcv (>= 1.6-1),
mlbench, mvtnorm, nnet
MASS, ellipse, grid, lme4, mvtnorm, nnet
MASS, codetools, diptest, ellipse, gclus, grid, lme4, mgcv
(>= 1.6-1), mlbench, mvtnorm, nnet
MASS, codetools, diptest, ellipse, gclus, lme4, mgcv (>=
1.6-1), mlbench, mlogit, multcomp, mvtnorm, nnet, survival
codetools, diptest, ellipse, gclus, lme4 (>= 1.0), MASS, mgcv
(>= 1.6-1), mlbench, mlogit, multcomp, mvtnorm, survival
codetools, diptest, ellipse, gclus, lme4 (>= 1.0), MASS, mgcv
(>= 1.8-0), mlbench, mlogit, multcomp, mvtnorm, survival
codetools, diptest, ellipse, gclus, glmnet, lme4 (>= 1.0),
MASS, mgcv (>= 1.8-0), mlbench, mlogit, multcomp, mvtnorm,
survival
actuar, codetools, diptest, ellipse, gclus, glmnet, lme4 (>=
1.0), MASS, mgcv (>= 1.8-0), mlbench, mlogit, multcomp,
mvtnorm, SuppDists, survival
actuar, codetools, diptest, Ecdat, ellipse, gclus, glmnet,
lme4 (>= 1.1), MASS, mgcv (>= 1.8-0), mlbench, multcomp,
mvtnorm, SuppDists, survival
relsurv, mexhaz, ggplot2, date, lubridate
colorspace, eha, ggplot2, knitr, msm, testthat, TH.data
flexsurvcure, survminer, lubridate, rmarkdown, colorspace,
eha, knitr, msm, testthat, TH.data
rmarkdown, knitr, xml2, testthat, ionicons
testthat (>= 2.1.0), xtable, magrittr, webshot, magick,
ggplot2, scales, broom
testthat, xtable, magrittr, webshot, magick, ggplot2
testthat (>= 2.1.0), xtable, webshot, magick, ggplot2,
scales, broom, mgcv, bookdown, equatags, commonmark,pdftools
testthat (>= 2.1.0), xtable, webshot, magick, ggplot2,
scales, broom, mgcv
testthat (>= 2.1.0), xtable, webshot, magick, ggplot2,
scales, broom, mgcv, bookdown
testthat (>= 2.1.0), xtable, webshot, magick, ggplot2,
scales, broom, mgcv, bookdown, equatags
testthat (>= 2.1.0), xtable, webshot, magick, ggplot2,
scales, broom, mgcv, bookdown, equatags, commonmark
testthat (>= 2.1.0), xtable, webshot, magick, ggplot2,
scales, broom, broom.mixed, mgcv, cluster, lme4, nlme,
bookdown, equatags, commonmark,pdftools
testthat (>= 2.1.0), doconv (>= 0.1.4), xtable, webshot,
magick, ggplot2, scales, broom, broom.mixed, mgcv, cluster,
lme4, nlme, bookdown, equatags, commonmark, pdftools
testthat (>= 2.1.0), magick, equatags, commonmark, ggplot2,
scales, webshot, doconv (>= 0.1.4), locatexec, xtable, broom,
broom.mixed, mgcv, cluster, lme4, nlme, bookdown, pdftools,
officedown
ggplot2 (>= 3.3.1), rmarkdown (>= 2.6), knitr
dplyr, ggplot2 (>= 3.3.1), rmarkdown (>= 2.6), knitr,
testthat
rmarkdown, knitr, devtools, tidyverse, HiTC,
HiCDataHumanIMR90, TopDom, zeallot, kableExtra, ade4, adegenet,
poppr, reticulate, tseries
devtools, microbenchmark, multipanelfigure, roxygen2, tools
bookdown, devtools, microbenchmark, multipanelfigure, pander,
roxygen2, tools
rmarkdown, knitr, covr, tidyverse, plotly, htmlwidgets,
htmltools
rmarkdown, knitr, covr, tidyverse, plotly, htmlwidgets,
htmltools, pracma, usethis
rmarkdown, knitr, covr, tidyverse, plotly, htmlwidgets,
htmltools, pracma
rmarkdown, knitr, covr, tidyverse, plotly, htmlwidgets,
htmltools, testthat (>= 3.0.0), akima
rmarkdown, knitr, covr, tidyverse, plotly, htmlwidgets,
htmltools, testthat (>= 3.0.0), interp
testthat (>= 2.1.0), covr, knitr, rmarkdown, esquisse,
tidyselect
data.table, kableExtra, knitr, rmarkdown, testthat (>= 3.0.0)
reshape2, knitr, ggplot2, openxlsx, testthat, funr
reshape2, knitr, testthat, funr, rmarkdown
covr, mvtnorm, knitr, rmarkdown, mcmc, tinytest
covr, knitr, rmarkdown, mcmc, tinytest, mvtnorm, adaptMCMC
covr, knitr, rmarkdown, mcmc, tinytest, mvtnorm,
tcltk, tkrplot, fastICA, adimpro, oro.nifti
tcltk, tkrplot, fastICA, adimpro (>= 0.9), oro.nifti
testthat, knitr, rmarkdown, covr, logr, utils
progress, testthat, covr, knitr, rmarkdown, dplyr
covr, dplyr, knitr, progress, rmarkdown, testthat
testthat, covr, knitr, rmarkdown, rnaturalearth, rgeos,
ggspatial, units
testthat, covr, knitr, rmarkdown, units, rgeos
testthat, covr, knitr, rmarkdown, rgeos, rworldmap
covr, testthat, knitr, rmarkdown, microbenchmark
testthat, knitr (>= 1.37), rmarkdown (>= 2.10),
engsoccerdata, loo
devtools, knitr, rmarkdown, testthat (>= 2.1.0), tibble, covr
knitr, rmarkdown, data.table, xml2, raster, testthat (>=
2.1.0)
covr, ggplot2, testthat, readr, knitr, rmarkdown, dplyr
covr, dplyr, ggplot2, knitr, readr, rmarkdown, testthat
covr, dplyr, ggplot2, knitr, readr, rmarkdown, testthat (>=
3.0.0)
ggplot2, knitr, rmarkdown, testthat (>= 3.0.0)
knitr (>= 1.8), rmarkdown (>= 1.18),testthat, evd
randomForest, doMC, doParallel, testthat, knitr, rmarkdown
testthat, knitr, rmarkdown, expsmooth, rticles
uroot, knitr, rmarkdown, rticles, testthat, methods
forecTheta, knitr, methods, rmarkdown, rticles, seasonal,
testthat, uroot
expsmooth, knitr, rmarkdown, rticles, testthat
expsmooth, uroot, knitr, rmarkdown, rticles, testthat,
methods
GMDH, knitr, rmarkdown, roxygen2, testthat
testthat, randomForest, ranger, parsnip, knitr, rmarkdown
testthat, abind, knitr, rmarkdown, rmeta
testthat, abind, knitr, rmarkdown, rmeta, dplyr, tidyr, rlang
dplyr, knitr, purrr, rmarkdown, rmeta, testthat, tibble,
tidyr, tidyselect, rlang
rmarkdown, knitr, vdiffr, testthat (>= 3.0.0)
rmarkdown, knitr, vdiffr, testthat (>= 3.0.0), covr
codetools, shiny, testit, knitr (>= 1.9)
codetools, shiny, testit, rmarkdown, knitr
rstudioapi, shiny, testit, rmarkdown, knitr
knitr, rmarkdown, lattice, MASS, meta, survival
knitr, rmarkdown, lattice, MASS, meta, survival, extrafont
dplyr, FactoMineR, forcats, ggplot2, knitr, likert,
rmarkdown, tidyr
MASS, knitr, rmarkdown, microbenchmark, dplyr, tidyr, purrr,
ggplot2, lattice
MASS, knitr, rmarkdown, dplyr, tidyr, purrr, ggplot2,
lattice, rbenchmark
mclust, trimcluster, prabclus, cluster, class
mclust02, trimcluster, prabclus, cluster, class
trimcluster, prabclus, class, diptest, mvtnorm
trimcluster, prabclus, class, diptest, mvtnorm, robustbase,
kernlab, tclust
prabclus, class, diptest, mvtnorm, robustbase, kernlab,
trimcluster
knitr, markdown, rmarkdown, ggplot2, crqa, MFDFA, fracdiff,
tseries, fields, ifultools, gridExtra, qpdf
stats, MASS, knitr, rmarkdown, ggplot2, dplyr
ggplot2, dplyr, tidyr, statmod, plotly, frailtySurv, parfm
covr, dplyr, ggplot2, knitr, purrr, rmarkdown, testthat, zoo,
xts
covr, dplyr, ggplot2, knitr, purrr, rmarkdown, testthat, xts,
zoo
magrittr, knitr, oro.nifti (>= 0.7), rgl, rmarkdown, pander,
fslr (>= 2.9.2)
knitr, rmarkdown, testthat (>= 2.1.0), oro.nifti (>= 0.9),
gifti
knitr, rmarkdown, testthat (>= 2.1.0), oro.nifti (>= 0.9),
gifti (>= 0.7.5), cifti (>= 0.4.5)
knitr, rmarkdown, testthat (>= 2.1.0), gifti
knitr, rmarkdown, testthat (>= 2.1.0), gifti, oro.nifti (>=
0.9)
markdown, rmarkdown, knitr, lubridate, ggplot2
testthat, stringr, mAr, reshape2, ggplot2, parallel, zoo
testthat, stringr, mAr, reshape2, ggplot2, parallel, zoo,
BigVAR
MASS, hflights, cluster, ggplot2, testthat, RSQLite
shinyWidgets, shinydashboard, knitr, rmarkdown, testthat (>=
2.1.0), covr
shinyWidgets, shinydashboard, bs4Dash, knitr, rmarkdown,
testthat (>= 2.1.0), covr
hms, knitr, lubridate, rmarkdown, testthat (>= 3.0.0)
checkmate, desc, packager, pkgload, rasciidoc, RUnit,
testthat (>= 3.0.0)
checkmate, desc, packager, pkgload, rasciidoc, RUnit,
testthat (>= 3.0.0), whoami
checkmate, desc, packager (>= 1.9.0), pkgload, rasciidoc (>=
3.0.1), RUnit, testthat (>= 3.0.0), whoami
callr, checkmate, desc, devtools, packager (>= 1.9.0),
pkgload, RUnit, testthat (>= 3.0.0), whoami, knitr, rmarkdown
callr, checkmate, desc, devtools, packager (>= 1.9.0),
pkgload, reshape, RUnit, testthat (>= 3.0.0), whoami, knitr,
rmarkdown
callr, checkmate, desc, devtools, digest, packager (>=
1.9.0), pkgload, reshape, RUnit, testthat (>= 3.0.0), whoami,
knitr, rmarkdown
callr, checkmate, desc, devtools, digest, knitr, packager (>=
1.9.0), pkgload, reshape, rmarkdown, RUnit, testthat (>=
3.0.0), tinytest, whoami
callr, checkmate, covr, desc, devtools, digest, knitr,
packager (>= 1.9.0), pkgload, reshape, rmarkdown, RUnit,
testthat (>= 3.0.0), tinytest, whoami
callr, checkmate, covr, desc, devtools, digest, knitr,
packager (>= 1.9.0), pkgload, reshape, rmarkdown, RUnit,
testthat (>= 3.0.0), tinytest, whoami, rasciidoc
callr, checkmate, covr, desc, devtools, digest, dplyr, knitr,
packager (>= 1.9.0), pkgload, reshape, rmarkdown, RUnit,
testthat (>= 3.0.0), tinytest, whoami, rasciidoc
knitr, testthat, moments, PDQutils, e1071, microbenchmark
testthat, covr, pillar (>= 1.0.0), crayon, withr
testthat, covr, pillar (>= 1.0.0), crayon, rmarkdown, knitr,
withr,
testthat, covr, pillar (>= 1.0.0), crayon, rmarkdown, knitr,
withr, spelling
testthat, covr, pillar (>= 1.0.0), tibble (>= 1.1.0), crayon,
rmarkdown, knitr, withr, spelling
testthat, covr, pillar (>= 1.0.0), tibble (>= 1.1.0), crayon,
rmarkdown, knitr, withr, spelling, vctrs (>= 0.3.0)
knitr, rmarkdown, sparsevar, plot.matrix, svMisc, MTS
knitr, rmarkdown, testthat (>= 2.1.0), magick
knitr, rmarkdown, testthat (>= 2.1.0), magick, misc3d
knitr, rmarkdown, testthat (>= 2.1.0), magick, misc3d,
viridis, RColorBrewer
knitr, rmarkdown, testthat (>= 2.1.0), sphereplot (>= 1.5),
magick, misc3d, viridis, RColorBrewer
knitr, rmarkdown, testthat (>= 2.1.0), sphereplot (>= 1.5),
misc3d, viridis, RColorBrewer
knitr, rmarkdown, testthat (>= 2.1.0), sphereplot (>= 1.5),
misc3d, RColorBrewer, Rvcg (>= 0.20.2), igraph, pracma
ada, affy, arm, Boruta, bst, C50, car, caTools, class,
Cubist, e1071, earth (>= 2.2-3), elasticnet, ellipse, evtree,
extraTrees, fastICA, foba, gam, gbm (>= 2.1), glmnet (>= 1.8),
gpls, grid, hda, HDclassif, HiDimDA, Hmisc, ipred, kernlab,
kknn, klaR, kohonen, KRLS, lars, leaps, LogicForest, logicFS,
LogicReg, MASS, mboost, mda, mgcv, mlbench, neuralnet, nnet,
nodeHarvest, obliqueRF, pamr, partDSA, party (>= 0.9-99992),
penalized, penalizedLDA, pls, pROC, proxy, qrnn,
quantregForest, randomForest, RANN, relaxo, rFerns, rocc,
rpart, rrcov, RRF, rrlda, RSNNS, RWeka (>= 0.4-1), sda, SDDA,
sparseLDA (>= 0.1-1), spls, stepPlr,superpc, vbmp
ada, arm, Boruta, bst, C50, car, caTools, class, Cubist,
e1071, earth (>= 2.2-3), elasticnet, ellipse, evtree,
extraTrees, fastICA, foba, gam, gbm (>= 2.1), glmnet (>= 1.8),
grid, hda, HDclassif, HiDimDA, Hmisc, ipred, kernlab, kknn,
klaR, kohonen, KRLS, lars, leaps, LogicReg, MASS, mboost, mda,
mgcv, mlbench, neuralnet, nnet, nodeHarvest, obliqueRF, pamr,
partDSA, party (>= 0.9-99992), penalized, penalizedLDA, pls,
pROC, proxy, qrnn, quantregForest, randomForest, RANN, relaxo,
rFerns, rocc, rpart, rrcov, RRF, rrlda, RSNNS, RWeka (>=
0.4-1), sda, SDDA, sparseLDA (>= 0.1-1), spls, stepPlr,superpc
ada, arm, Boruta, bst, C50, car, caTools, class, Cubist,
e1071, earth (>= 2.2-3), elasticnet, ellipse, evtree,
extraTrees, fastICA, foba, gam, gbm (>= 2.1), glmnet (>= 1.8),
grid, hda, HDclassif, Hmisc, ipred, kernlab, kknn, klaR,
kohonen, KRLS, lars, leaps, LogicReg, MASS, mboost, mda, mgcv,
mlbench, neuralnet, nnet, nodeHarvest, obliqueRF, pamr,
partDSA, party (>= 0.9-99992), penalized, penalizedLDA, pls,
pROC, proxy, qrnn, quantregForest, randomForest, RANN, relaxo,
rFerns, rocc, rpart, rrcov, RRF, rrlda, RSNNS, RWeka (>=
0.4-1), sda, sparseLDA (>= 0.1-1), spls, stepPlr, superpc
ada, arm, Boruta, bst, C50, car, caTools, class, Cubist,
e1071, earth (>= 2.2-3), elasticnet, ellipse, evtree,
extraTrees, fastICA, foba, gam, gbm (>= 2.1), glmnet (>= 1.8),
hda, HDclassif, Hmisc, ipred, kernlab, kknn, klaR, kohonen,
KRLS, lars, leaps, LogicReg, MASS, mboost, mda, mgcv, mlbench,
neuralnet, nnet, nodeHarvest, obliqueRF, pamr, partDSA, party
(>= 0.9-99992), penalized, penalizedLDA, pls, pROC, proxy,
qrnn, quantregForest, randomForest, RANN, relaxo, rFerns, rocc,
rpart, rrcov, RRF, rrlda, RSNNS, RWeka (>= 0.4-1), sda,
sparseLDA (>= 0.1-1), spls, stepPlr, superpc
plotly, knitr, rmarkdown, network, ggnetwork
testthat, bit64, data.table, lintr, nanotime
testthat, bit64, data.table, lintr, nanotime, crayon
roxygen2 (>= 6.1.1), testthat, knitr, pubchunks
roxygen2 (>= 7.0.2), testthat, knitr, pubchunks
roxygen2 (>= 7.1.0), testthat, knitr, rmarkdown, pubchunks,
vcr
roxygen2 (>= 7.1.0), testthat, pubchunks, vcr
covr, ggplot2, gridExtra, reshape2, zoo, testthat
covr, fda, ggplot2 (>= 3.0.0), gridExtra, reshape2, zoo,
testthat (<= 2.0.0)
covr, fda, ggplot2 (>= 3.0.0), gridExtra, reshape2, zoo,
testthat (>= 2.0.0)
covr, fda, ggplot2 (>= 3.0.0), gridExtra, reshape2, zoo,
testthat
testthat, covr, knitr, rmarkdown, ggplot2, igraph
testthat (>= 3.0.0), knitr, rmarkdown, memoise
future, knitr, memoise, rmarkdown, testthat (>= 3.0.0)
ade4, ggplot2, knitr, Matrix, microbenchmark, reshape2,
rmarkdown, StatMatch, testthat
ade4, ggplot2, knitr, Matrix, rmarkdown, testthat
ade4, ggplot2, knitr, Matrix, rmarkdown, testthat, tidytext
ade4, ggplot2, knitr, Matrix, rmarkdown, testthat (>= 2.1.0),
tidytext
ade4, ggplot2, knitr, rmarkdown, testthat (>= 2.99.0),
tidytext
covid19us, Ecdat, ggplot2, knitr, patchwork, randomcoloR,
rmarkdown
covid19us, Ecdat, ggplot2, gridExtra, knitr, patchwork,
randomcoloR, readxl, reshape2, rmarkdown
tidyverse, rmarkdown, testthat, MASS, sjmisc
tidyverse, dplyr, rmarkdown, testthat, MASS, sjmisc
pkgload, tidyverse, rmarkdown, testthat, MASS, sjmisc
listenv (>= 0.6.0), dplyr (>= 0.7.4), testthat
carrier, covr, dplyr (>= 0.7.4), knitr, listenv (>= 0.6.0),
magrittr, progressr, rmarkdown, testthat, withr, tidyselect
carrier, covr, dplyr (>= 0.7.4), knitr, listenv (>= 0.6.0),
magrittr, rmarkdown, testthat (>= 3.0.0), withr, tidyselect
carrier, covr, dplyr (>= 0.7.4), knitr, listenv (>= 0.6.0),
magrittr, rmarkdown, testthat (>= 3.0.0), tidyselect, withr
knitr, pkgload, rmarkdown, spelling, testthat, withr
knitr, pkgload, rcmdcheck, rmarkdown, rstudioapi, spelling,
testthat (>= 3.0.0), withr
knitr, pkgload, rcmdcheck, rmarkdown, rstudioapi, testthat
(>= 3.0.0), withr
stats, listenv (>= 0.7.0), R.rsp, markdown
datasets, stats, tools, listenv (>= 0.7.0), R.rsp, markdown
datasets, stats, tools, listenv (>= 0.8.0), R.rsp, markdown
globals, future.apply, listenv, markdown, R.rsp
commonmark, base64enc, utils, tools, data.table, ff
maptools, parallel, PBSmapping, sp, tools, raster
maptools, parallel, PBSmapping, raster, sp, tools
maptools, parallel, PBSmapping, raster, sp, terra, tools
aod, maptools, parallel, PBSmapping, raster, sp, terra, tools
testthat, knitr, ggplot2, qdapDictionaries, readr, rvest,
rmarkdown, maps, covr
testthat, knitr, ggplot2, qdapDictionaries, readr, rvest,
rmarkdown, maps, IRanges, covr
testthat, knitr, ggplot2, qdapDictionaries, readr, rvest,
rmarkdown, maps
survival, boot, sandwich (>= 2.4-0), lmtest, parallel
fixest, lfe, ivreg, clubSandwich, lmtest, data.table,
fabricatr, covr, knitr, rmarkdown, broom, modelsummary, bench,
testthat (>= 3.0.0), tibble, sandwich
fixest, lfe, data.table, fabricatr, tinytest, covr, knitr,
rmarkdown, spelling, broom, modelsummary
fixest, lfe, plm, clusterSEs, data.table, fabricatr,
tinytest, covr, knitr, rmarkdown, spelling, broom, modelsummary
fixest, lfe, plm, clusterSEs, data.table, fabricatr,
tinytest, covr, knitr, rmarkdown, spelling, broom,
modelsummary, RStata
fixest, lfe, data.table, fabricatr, tinytest, covr, knitr,
rmarkdown, spelling, broom, modelsummary, RStata
fixest, lfe, data.table, fabricatr, tinytest, covr, knitr,
rmarkdown, broom, modelsummary, RStata
fixest, lfe, ivreg, clubSandwich, sandwich, lmtest,
data.table, fabricatr, covr, knitr, rmarkdown, broom,
modelsummary, bench, testthat (>= 3.0.0)
fixest, lfe, ivreg, clubSandwich, sandwich, lmtest,
data.table, fabricatr, covr, knitr, rmarkdown, broom,
modelsummary, bench, testthat (>= 3.0.0), tibble
badger, hexSticker, knitr, kableExtra, pkgdown, rmarkdown,
scales, testthat
lintr (>= 3.0.0), magrittr, progress, scales, spelling,
styler, tictoc
testthat, knitr, covr, utils, future, pkgdown
testthat (>= 2.1.0), withr, rlang, zoo, covr
shiny (>= 1.0.0), knitr, rmarkdown, kableExtra
RUnit, Deducer, highlight (>= 0.2-3), mutoss
RUnit, Deducer, highlight (>= 0.2-3), mutoss, boot
RUnit, Deducer, highlight (>= 0.2-3), graph (>= 1.20),
mutoss, boot
RUnit, Deducer, highlight (>= 0.2-3), graph (>= 1.20),
mutoss, boot, RMySQL
RUnit, Deducer, knitr, graph (>= 1.20), mutoss, boot
RUnit, Deducer, knitr, graph (>= 1.20), mutoss, boot, coin
covr, dplyr, gridExtra, gsDesign, gt, kableExtra, knitr,
multcomp, ragg, rmarkdown, scales, testthat (>= 3.0.0), tibble
tikzDevice, grid, gridExtra, knitr, rmarkdown
tikzDevice, grid, gridExtra, knitr, rmarkdown, roxygen2,
testthat (>= 2.1.0)
tikzDevice, grid, gridExtra, knitr, rmarkdown, roxygen2,
ggsci, tidyverse, magrittr, scales, pdftools, testthat (>=
2.1.0)
tikzDevice, grid, gridExtra, knitr, rmarkdown, roxygen2,
ggsci, tidyverse, magrittr, scales, pdftools, testthat (>=
2.1.0), webshot2
microbenchmark, knitr, testthat (>= 2.1.0)
testthat (>= 2.1.0), microbenchmark, knitr
pscl, gridExtra, VGAM, AER, rmarkdown, devtools
covr, dplyr, ggplot2, knitr, ozmaps, pkgdown, rmarkdown,
testthat
covr, dplyr, ggplot2, knitr, pkgdown, rmarkdown, taxize,
testthat
vcr (>= 0.6.0), collapsibleTree, covr, dplyr, ggplot2, knitr,
magrittr, pkgdown, rmarkdown, taxize, testthat, treemapify,
viridis
vcr (>= 0.6.0), covr, dplyr, knitr, magrittr, pkgdown,
rmarkdown, taxize, testthat
vcr (>= 0.6.0), covr, dplyr, kableExtra, knitr, magrittr,
pkgdown, rmarkdown, testthat
mgcv, lattice, MASS, nlme, lme4, geoR, survival
gamlss, BayesX, gamlss.dist, survival, R2BayesX
gamlss, gamlss.dist, survival, BayesX, R2BayesX
leaps, quantreg, sp, diagram, ape, oz, forecast, DAAGbio,
SMIR, kernlab
leaps, quantreg, sp, diagram, oz, forecast, SMIR, kernlab,
Ecdat, mlbench, DAAGbio, knitr
leaps, quantreg, sp, diagram, oz, forecast, kernlab, Ecdat,
mlbench, DAAGbio, knitr
leaps, quantreg, sp, diagram, oz, forecast, kernlab, Ecdat,
mlbench, DAAGbio, car, mgcv, DAAG, MASS, ape,
KernSmooth,knitr,prettydoc,rmarkdown,bookdown
testthat (>= 3.0.0), tidyverse, palmerpenguins, knitr,
rmarkdown
testthat (>= 3.0.0), tidyverse, palmerpenguins, knitr,
rmarkdown, spelling
knitr, MASS, survival, gamlss.cens, gamlss.tr
covr, knitr, magrittr, rmarkdown, testthat, vdiffr
covr, knitr, magrittr, rmarkdown, testthat (>= 3.0.0), vdiffr
(>= 1.0.0)
devtools, ggplot2, knitr, rmarkdown, testthat
devtools, ggplot2, knitr, rmarkdown, testthat, dplyr, purrr,
tidyr, spelling, covr
Design, Hmisc, haplo.stats, magic, pedigree, MASS
BradleyTerry2, Design, Hmisc, MASS, haplo.stats, magic,
pedigree, survival
BradleyTerry2, Design, Hmisc, MASS, grid, haplo.stats, magic,
pedigree, survival
BradleyTerry2, coxme, rms, MASS, NCBI2R, grid, haplo.stats,
kinship2, magic, nlme, pedigree, pedigreemm, regress, survival
BradleyTerry2, coxme, rms, MASS, NCBI2R, foreign, grid,
haplo.stats, kinship2, magic, mets, nlme, pedigree, pedigreemm,
regress, survival
BradleyTerry2, MASS, Matrix, MCMCglmm, R2OpenBUGS, R2jags,
bdsmatrix, coda, coxme, foreign, grid, haplo.stats, kinship2,
lattice, magic, mets, nlme, pedigree, pedigreemm, regress, rms,
survival
BradleyTerry2, MASS, Matrix, MCMCglmm, R2jags, bdsmatrix,
coxme, foreign, grid, haplo.stats, kinship2, lattice, magic,
mets, nlme, pedigree, pedigreemm, regress, rms, survival
BradleyTerry2, MASS, Matrix, MCMCglmm, R2jags, bdsmatrix,
coda, coxme, foreign, grid, haplo.stats, kinship2, lattice,
magic, mets, nlme, pedigree, pedigreemm, regress, rms, survival
BradleyTerry2, Design, Hmisc, MASS, grid, haplo.stats,
kinship, magic, pedigree, survival
BradleyTerry2, rms, Hmisc, MASS, NCBI2R, grid, haplo.stats,
kinship, magic, pedigree, survival
BradleyTerry2, rms, MASS, NCBI2R, grid, haplo.stats,
kinship2, magic, pedigree, survival
BradleyTerry2, MASS, Matrix, MCMCglmm, R2jags, bdsmatrix,
calibrate, circlize, coda, coxme, dplyr, foreign, forestplot,
gap.datasets, grid, haplo.stats, kinship2, lattice, magic,
meta, mets, nlme, pedigree, pedigreemm, plotrix, qqman,
regress, reshape, rmeta, rms, survival
BradleyTerry2, MASS, Matrix, MCMCglmm, R2jags, bdsmatrix,
calibrate, circlize, coda, coxme, dplyr, foreign, forestplot,
gap.datasets, grid, haplo.stats, kinship2, lattice, magic,
matrixStats, meta, mets, nlme, pedigree, pedigreemm, plotrix,
qqman, regress, reshape, rmeta, rms, survival
BradleyTerry2, MASS, Matrix, MCMCglmm, R2jags, bdsmatrix,
calibrate, circlize, coda, cowplot, coxme, dplyr, foreign,
forestplot, gap.datasets, genetics, ggplot2, grid, haplo.stats,
jsonlite, kinship2, lattice, magic, matrixStats, meta, metafor,
mets, nlme, pedigree, pedigreemm, plotly, plotrix, reshape,
rmeta, rms, survival
BradleyTerry2, MASS, Matrix, MCMCglmm, R2jags, bdsmatrix,
calibrate, circlize, coda, cowplot, coxme, foreign, forestplot,
genetics, grid, haplo.stats, htmlwidgets, jsonlite, kinship2,
knitr, lattice, magic, matrixStats, meta, metafor, mets, nlme,
pedigree, pedigreemm, plotrix, reshape, rmarkdown, rmeta, rms,
survival
BradleyTerry2, DiagrammeR, DOT, MASS, Matrix, MCMCglmm,
R2jags, bdsmatrix, calibrate, circlize, coda, cowplot, coxme,
foreign, forestplot, genetics, grid, haplo.stats, htmlwidgets,
jsonlite, kinship2, knitr, lattice, magic, manhattanly,
matrixStats, meta, metafor, mets, nlme, pedigree, pedigreemm,
plotrix, readr, reshape, rmarkdown, rmeta, rms, survival
testthat (>= 3.0.0), knitr, rmarkdown, spelling
tidymodels, tidyverse, modeltime, timetk, lubridate, knitr,
rmarkdown, roxygen2, testthat (>= 3.0.0), covr
covr, knitr, rmarkdown, sodium, testthat
covr, knitr, rmarkdown, sodium, testthat (>= 2.1.0)
covr, knitr, rmarkdown, sodium, spelling, testthat (>= 2.3.2)
covr, httpuv, knitr, mockr, rmarkdown, sodium, spelling,
testthat (>= 3.0.0)
aws.ec2metadata, aws.signature, covr, httpuv, knitr, mockr,
rmarkdown, sodium, spelling, testthat (>= 3.0.0)
aws.ec2metadata, aws.signature, covr, httpuv, knitr, mockr,
rmarkdown, sodium, spelling, testthat (>= 3.1.2)
longmemo, yardstick, tidyverse, testthat, knitr, rmarkdown
longmemo, tidyverse, BB, GA, pso, dfoptim, testthat, knitr,
rmarkdown
longmemo, yardstick, tidyverse, BB, GA, pso, dfoptim,
testthat, knitr, rmarkdown
rmarkdown, knitr, covr, testthat, methods
rmarkdown, knitr, covr, testthat, vdiffr
rmarkdown, knitr, covr, testthat, vdiffr, rstantools
rmarkdown, knitr, covr, testthat (>= 2.99), ragg, vdiffr,
rstantools
dplyr, flowWorkspaceData, ncdfFlow, R.rsp, spelling,
testthat, usethis
dplyr, R.rsp, spelling, testthat, usethis, utils
flowWorkspaceData, knitr, ncdfFlow, R.rsp, spelling, testthat
spelling, dbplyr, testthat (>= 3.0.0), covr, knitr,
rmarkdown, aws.s3
covr, gridExtra, knitr, pdp, RUnit, splines, tinytest, vip,
viridis
testthat (>= 3.0.0), classGraph, graph, Rgraphviz
EQL, FNN, gcmr, lattice, latticeExtra, Matrix, MASS,
numDeriv, scatterplot3d, snowfall, sp
EQL, FNN, lattice, latticeExtra, Matrix, MASS, numDeriv,
scatterplot3d, snowfall, sp
EQL, FNN, gcmr, lattice, latticeExtra, mvtnorm, Matrix, MASS,
numDeriv, scatterplot3d, snowfall, sp
EQL, FNN, lattice, latticeExtra, mvtnorm, Matrix, MASS,
numDeriv, scatterplot3d, snowfall, sp
raster, rasterVis, RColorBrewer, testthat, gdalUtils
raster, rgdal, rasterVis, RColorBrewer, testthat
raster, rgdal, rasterVis, RColorBrewer, testthat, stars
knitr, magrittr, processx, rmarkdown, stars
knitr, magrittr, processx, rmarkdown, stars, magick
knitr, magrittr, rmarkdown, stars, magick, sf
knitr, magrittr, rmarkdown, stars, av, gifski, sf, tinytest
gridBezier, grImport, metapost, ssh, stevedore
knitr, markdown, rmarkdown, testthat (>= 2.1.0)
htmltools, testthat, fontquiver (>= 0.2.0)
htmltools, testthat, fontquiver (>= 0.2.0), curl
testthat, gstat, geoR, Matrix, RandomFields, spam
sp, sf, testthat, Matrix, geoR, gstat, spam, ggplot2, lattice
covr, markdown, readr, rmarkdown, spelling, testthat (>=
3.0.0)
testthat, knitr, dplyr, moments, sandwich, inferference,
xtable, AER, ICSNP, MASS, gee, ivpack, saws, rmarkdown,
geepack, covr, mvtnorm
testthat, knitr, dplyr, moments, sandwich, inferference,
xtable, AER, ICSNP, MASS, gee, ivpack, saws, rmarkdown,
geepack, covr
testthat, knitr, dplyr, moments, sandwich, inferference,
xtable, AER, ICSNP, MASS, gee, saws, rmarkdown, geepack, covr,
mvtnorm
knitr, testthat (>= 2.1.0), rmarkdown, formatR
knitr, markdown, testthat (>= 2.1.0), rmarkdown, formatR
BiocManager, cowplot, DOSE, data.table, easyPubMed,
futile.logger, ggplotify, ggsci, ggupset, magrittr, msigdbr,
openxlsx, RColorBrewer, rentrez, scales, stats, utils
BiocManager, cowplot, DOSE, data.table, easyPubMed, fgsea,
futile.logger, ggplotify, ggsci, ggupset, ggrepel, magrittr,
msigdbr, openxlsx, RColorBrewer, rappdirs, rentrez, scales,
stats, utils, testthat (>= 3.0.0), knitr, rmarkdown
AnnotationDbi, BiocManager, cowplot, DOSE, data.table,
easyPubMed, forcats, fgsea, futile.logger, ggplotify, ggsci,
ggupset, ggrepel, ggridges, ggnewscale, GOplot, GOSemSim,
msigdbr, RColorBrewer, rappdirs, rentrez, reshape2, rio, rrvgo,
scales, stats, testthat (>= 3.0.0), tibble, knitr, rmarkdown
AnnotationDbi, BiocManager, cowplot, ComplexUpset,
data.table, forcats, fgsea, futile.logger, ggplotify, ggsci,
ggupset, ggrepel, ggridges, ggnewscale, GOplot, GOSemSim,
labeling, msigdbr, pheatmap, tm, treemap, RColorBrewer,
rappdirs, RCurl, reshape2, rio, rrvgo, scales, stats, testthat
(>= 3.0.0), tibble, wordcloud, knitr, rmarkdown
covr, pkgload, testthat (>= 3.0.0), tibble, withr
agridat, spelling, knitr, rmarkdown, testthat
testthat, knitr, rmarkdown, lfa, BEDMatrix, snpStats, pryr
testthat, knitr, rmarkdown, BEDMatrix, snpStats, pryr
testthat, knitr, rmarkdown, BEDMatrix, snpStats, lobstr
Matrix, igraph, zoo, knitr, rmarkdown, cubature
coda, distr, distrEx, reldist, rlecuyer, snowfall
MASS, scatterplot3d, RandomFields, methods, tcltk
MASS, splancs, scatterplot3d, RandomFields, methods, tcltk
MASS, splancs, scatterplot3d, RandomFields, methods, tcltk,
geoRglm
scatterplot3d, tcltk, geoRglm, lattice, graphics
scatterplot3d, geoRglm, lattice, graphics, tcltk
covr, dplyr, ggplot2, knitr, mapview, rio, rmarkdown,
testthat
covr, dplyr (>= 0.8-3), ggplot2, knitr, magrittr, mapview,
rio, rmarkdown, testthat, tmap
covr, dplyr (>= 0.8-3), ggplot2 (>= 3.3.1), knitr, magrittr,
mapview, rmarkdown, testthat
covr, crul, dplyr (>= 0.8-3), ggplot2 (>= 3.3.1), knitr,
magrittr, mapview, rmarkdown (>= 2.6), testthat
covr, dplyr (>= 0.8-3), ggplot2 (>= 3.3.1), knitr, magrittr,
mapview, rmarkdown (>= 2.6), testthat
covr, dplyr (>= 0.8-3), ggplot2 (>= 3.3.1), knitr, rmarkdown
(>= 2.6), testthat
testthat, ggplot2, rmarkdown, rasterVis, mapdata, maptools,
maps, tidyverse, tidyr, ggmap, corrplot, cowplot, gridExtra,
factoextra, cluster
testthat, ggplot2, rmarkdown, rasterVis, mapdata, maptools,
maps, tidyverse, tidyr, ggmap, corrplot, cowplot, gridExtra,
factoextra, cluster, knitr, rfigshare, snow
testthat, ggplot2, rmarkdown, rasterVis, mapdata, maptools,
maps, tidyverse, tidyr, ggmap, corrplot, cowplot, gridExtra,
factoextra, cluster, knitr, rfigshare
testthat, covr, lintr, knitr, rmarkdown, packagedocs
covr, geofacet, ggplot2, ggtern, httptest (>= 4.0.0),
janitor, knitr, leaflet, pxweb, rmarkdown, sotkanet, testthat,
tidyr, tmap, tricolore, patchwork, ggrepel, htmltools, readr
covr, geofacet, ggplot2, ggtern, httptest (>= 4.0.0),
janitor, knitr, leaflet, pxweb, rmarkdown, sotkanet, testthat,
tidyr, tmap, tricolore, patchwork, ggrepel, htmltools, readr,
useful, grid
covr, geofacet, ggplot2, ggrepel, httptest (>= 4.0.0),
janitor, knitr, leaflet, pxweb, rmarkdown, testthat, tidyr,
patchwork, htmltools, readr
covr, geofacet, ggplot2, ggrepel, htmltools, httptest (>=
4.0.0), janitor, knitr, leaflet, patchwork, pxweb, readr,
rmarkdown, testthat, tidyr
rgdal, sf, sp, testthat, knitr, rmarkdown, ggplot2
geojsonlint (>= 0.2.0), tibble, testthat, covr, knitr
geojsonlint (>= 0.2.0), tibble, testthat, knitr, rmarkdown
geojsonlint (>= 0.2.0), tibble, testthat, knitr, rmarkdown,
sf, stringi
covr, DBI, geojsonlint, gistr, leaflet, maps, RPostgres,
testthat (>= 3.0.0), withr
gistr, testthat, knitr, rmarkdown, leaflet, maps, DBI,
RPostgres
gistr, testthat, leaflet, maps, DBI, RPostgres
covr, DBI, geojsonlint, gistr, leaflet, maps, RPostgres,
testthat (>= 3.0.0)
testthat, knitr, rmarkdown (>= 0.9.6), covr
covr, jsonify, knitr, rmarkdown, testthat
covr, jsonify, knitr, rmarkdown, tinytest
testthat, xtable, knitr, rmarkdown, ggmap, rasterVis,
ggplot2, rgdal, maps
testthat, xtable, knitr, rmarkdown, ggmap, dplyr, rasterVis,
ggplot2, rgdal, maps
testthat, xtable, knitr, rmarkdown, ggmap, dplyr, rasterVis,
ggplot2, rgdal, sp, raster
redist, knitr, rmarkdown, testthat (>= 3.0.0)
sf, ncdf4, EML, emld, testthat, roxygen2
sf, ncdf4, EML, emld, units, udunits2, testthat, roxygen2
sf, ncdf4, EML, emld, units, testthat, roxygen2
testthat, rmarkdown, magrittr, covr, knitr, readr
testthat, rmarkdown, bookdown, magrittr, covr, knitr
spelling, testthat, rgl, R.matlab, tripack
spelling, testthat, rgl, R.matlab, interp
ggrepel, knitr, igraph, ggmap, spelling, rmarkdown
testthat (>= 3.0.0), covr, knitr, rmarkdown, ragg, roxygen2,
sf, xml2, markdown
devtools, ggmap, knitr, maps, mapview, rmarkdown, roxygen2,
spData, testthat
devtools, knitr, maps, mapview, rmarkdown, roxygen2, spData,
testthat, tmaptools
roxygen2 (>= 6.0.1), testthat, knitr, rmarkdown, jsonlite
roxygen2 (>= 7.1.0), testthat, knitr, rmarkdown, jsonlite
testthat (>= 2.1.0), wk, vctrs, sf, wkutils
geoR, dplyr, PrevMap, rmarkdown, testthat, viridisLite,
raster, knitr
testthat, roxygen2, covr, shiny, knitr, markdown
pracma, geoR, RandomFields, rgdal, parallel, numDeriv
geoR, RandomFields, rgdal, parallel, mapmisc, ellipse
geoR, RandomFields, rgdal, parallel, mapmisc, ellipse, pracma
geoR, RandomFields, rgdal, parallel, mapmisc, ellipse,
pracma, knitr
RandomFields, rgdal, parallel, mapmisc, ellipse, pracma,
knitr
RandomFields (>= 3.3.4), rgdal, parallel, mapmisc, ellipse,
pracma, knitr
knitr, rmarkdown, magrittr, covr, testthat (>= 2.1.0)
dplyr, knitr, mice, rmarkdown, testthat (>= 2.1.0)
knitr, rmarkdown, reshape2, pander, XML, httr, RCurl
glmnet, testthat, knitr, rmarkdown, ggplot2
magrittr (>= 1.5), dplyr (>= 0.7.5), testthat (>= 2.0.0),
knitr, rmarkdown
magrittr (>= 1.5), testthat (>= 3.0.0), knitr, rmarkdown
ccafs, covr, ggplot2, knitr, readr, rmarkdown, roxygen2 (>=
6.0.1), sp, testthat, viridis
covr, ggplot2, knitr, rmarkdown, roxygen2 (>= 6.0.1),
testthat, viridis
covr, ggplot2, knitr, readr, rmarkdown, roxygen2 (>= 6.0.1),
sp, testthat, viridis
covr, ggplot2, knitr, readr, rmarkdown, rappdirs, roxygen2
(>= 6.0.1), sp, testthat, viridis
covr, ggplot2, knitr, readr, rmarkdown, rappdirs, roxygen2
(>= 6.1.0), sp, testthat, viridis
covr, ggplot2, knitr, pkgdown, rmarkdown, rappdirs, roxygen2
(>= 6.1.0), testthat, viridis
covr, ggplot2, knitr, markdown, rmarkdown, rappdirs,
roxygen2, testthat, viridis
knitr, rmarkdown, dplyr, testthat (>= 2.1.0), covr,
formulaic, devtools
knitr, rmarkdown, dplyr, testthat (>= 2.1.0), covr, devtools
devtools, testthat, covr, rmarkdown, knitr
devtools, testthat, covr, rmarkdown, knitr, tidyverse, shiny,
shinydashboard, shinyWidgets, shinycssloaders
devtools, testthat, vdiffr, covr, pkgnet, rmarkdown, knitr,
tidyverse, shiny, shinydashboard, shinyWidgets, shinycssloaders
devtools, testthat, vdiffr, covr, pkgnet, rmarkdown, knitr,
tidyverse, shiny, shinydashboard, shinyWidgets,
shinycssloaders, hexSticker
roxygen2 (>= 5.0.1), testthat, knitr, covr, raster
roxygen2 (>= 6.0.1), testthat, knitr, raster
foreign (>= 0.8-62), knitr (>= 1.10.5), testthat, covr
foreign (>= 0.8-62), knitr (>= 1.10.5), testthat, covr,
rmarkdown
knitr (>= 1.10.5), testthat, covr, rmarkdown
kde1d, knitr, rmarkdown, lmerTest, emmeans, testthat
kde1d, knitr, rmarkdown, lmerTest, emmeans, testthat, AOV1R,
GGally, car, doParallel
kde1d, knitr, rmarkdown, lmerTest, emmeans, testthat, AOV1R,
GGally, car
AOV1R, car, emmeans, GGally, kde1d, knitr, lmerTest,
rmarkdown, testthat
knitr, rmarkdown, testthat (>= 2.1.0), vcr, covr
devtools, knitr, data.table, testthat, rmarkdown, ggplot2,
penaltyLearning
knitr, rmarkdown, roxygen2, tibble, MASS, viridisLite,
ggrepel, gridExtra, unrepx, metR, rsm, lhs
knitr (>= 1.7), rmarkdown, rstudioapi (>= 0.5), testthat,
vdiffr, fontquiver, shinydisconnect, svglite, withr, devtools
knitr (>= 1.7), rmarkdown, rstudioapi (>= 0.5), testthat,
vdiffr, fontquiver, svglite, withr, devtools
ggh4x, ggthemes, knitr, patchwork, rmarkdown, testthat (>=
3.0.0), tidyverse, utils
ggthemes, knitr, patchwork, rmarkdown, testthat (>= 3.0.0),
tidyverse, utils
ggOceanMapsData, cowplot, knitr, rmarkdown, scales
ggOceanMapsData, cowplot, knitr, rmarkdown, scales, rgdal,
ggnewscale
testthat, xtable, vdiffr, rxode2, nlmixr, nlmixr2,
nlmixr2data, lixoftConnectors, xgxr, withr
testthat, gridExtra, knitr, rmarkdown, reshape2, plyr
testthat, knitr, RColorBrewer, xtable, MASS, plot3D
testthat, knitr, RColorBrewer, MASS, dplyr, plot3D
testthat, rmdformats, RColorBrewer, MASS, dplyr, knitr,
rmarkdown, plot3D
testthat, rmdformats, RColorBrewer, MASS, dplyr, knitr,
rmarkdown, plot3D, lintr, datasets
testthat, rmdformats, bookdown, RColorBrewer, MASS, dplyr,
knitr, rmarkdown, plot3D, lintr, datasets
dplyr, forcats, knitr, lme4, lmerTest, nlme, randomForest,
rmarkdown, rpart, testthat, vdiffr, wesanderson
testthat (>= 2.1.0), knitr, rmarkdown, tidyr, venn,
RColorBrewer
grid, alluvial, testthat, knitr, babynames, sessioninfo,
ggrepel, ggfittext (>= 0.6.0)
grid, alluvial, testthat, knitr, babynames, sessioninfo,
ggrepel, ggfittext (>= 0.6), vdiffr (>= 0.2)
grid, alluvial, testthat, knitr, rmarkdown, babynames,
sessioninfo, ggrepel, ggfittext (>= 0.6), vdiffr (>= 0.2)
grid, alluvial, testthat, knitr, rmarkdown, babynames,
sessioninfo, ggrepel, shiny (>= 1.4.0.2), htmltools, sp (>=
1.4-0), ggfittext (>= 0.6), vdiffr (>= 0.2)
grid, alluvial, testthat, knitr, babynames
grid, alluvial, testthat, knitr, babynames, devtools,
ggrepel, ggfittext (>= 0.6.0)
testthat, gridExtra, knitr, rmarkdown, ggthemes
testthat, gridExtra, knitr, rmarkdown, ggthemes, reshape2
magick, svglite, knitr, rmarkdown, testthat, base64enc,
htmltools, covr, transformr, av, png, gifski
magick, svglite, knitr, rmarkdown, testthat, base64enc,
htmltools, covr, transformr, av, gifski
magick, svglite, knitr, rmarkdown, testthat, base64enc,
htmltools, covr, transformr, av, gifski, ragg
magick, svglite, knitr, rmarkdown, testthat, base64enc,
htmltools, covr, transformr, av, gifski (>= 1.4.3), ragg
knitr, rmarkdown, testthat, spelling, covr, broom (>= 0.5.0),
corrr (>= 0.3.0)
ggforce, palmerpenguins, pals, patchwork, plotly, santoku, sf
palmerpenguins, pals, patchwork, plotly, santoku, sf
knitr, palmerpenguins, pals, patchwork, plotly, rmarkdown,
sf, stringr
ggdensity, ggiraph, ggtext, hexbin, knitr, palmerpenguins,
pals, patchwork, rmarkdown, sf
rmarkdown, knitr, scales, readr, dplyr, tidyr, ggtext, glue,
hms
knitr, prettydoc, rmarkdown, patchwork, pillar
cowplot, ggimage, knitr, patchwork, pillar, prettydoc,
rmarkdown
gapminder, knitr, rmarkdown, tidyr, testthat (>= 2.1.0),
vdiffr
gapminder, knitr, lintr, rmarkdown, scales, spelling, tibble,
tidyr, testthat (>= 2.1.0), vdiffr
knitr, testthat, futile.logger (>= 1.4.3), dplyr, tibble
tidyverse, knitr, testthat, futile.logger (>= 1.4.3), hexbin,
dplyr
testthat (>= 3.0.0), knitr, spelling, vdiffr (>= 1.0.0)
rmarkdown, knitr, BiocStyle, htmltools,
BSgenome.Hsapiens.UCSC.hg19, graphics
knitr, rmarkdown, spelling, testthat (>= 2.1.0), covr, vdiffr
(>= 0.3.0)
covr, knitr, rmarkdown, spelling, testthat (>= 3.0.0), vdiffr
(>= 1.0.2)
covr, knitr, rmarkdown, spelling, testthat (>= 3.0.0), vdiffr
(>= 1.0.2), withr
rpart(>= 4.0-0), tree, testthat, knitr, cluster
rpart(>= 4.0-0), tree, testthat, knitr, cluster, scales
rpart (>= 4.0-0), tree, testthat, knitr, cluster, scales,
spelling, rmarkdown
rpart (>= 4.0-0), tree, testthat, knitr, cluster, scales,
spelling, rmarkdown, covr
knitr, testthat, vdiffr (>= 0.3.0), svglite, broom (>=
0.4.3), modelr, cowplot, covr, gdtools, rmarkdown, ggrepel,
RColorBrewer, png, pkgdown
knitr, testthat, vdiffr (>= 0.3.0), svglite, broom (>=
0.5.6), modelr, cowplot, covr, gdtools, rmarkdown, png, pkgdown
knitr, testthat, vdiffr (>= 1.0.0), svglite, broom (>=
0.5.6), modelr, cowplot, covr, gdtools, rmarkdown, png, fda,
beeswarm, pkgdown
knitr, testthat, vdiffr (>= 1.0.0), svglite, broom (>=
0.5.6), modelr, cowplot, covr, gdtools, rmarkdown, png, fda,
forcats, purrr (>= 0.2.3), tidyr (>= 1.0.0), beeswarm (>=
0.4.0), posterior, pkgdown
knitr, testthat, vdiffr (>= 1.0.0), svglite (>= 2.1.0), broom
(>= 0.5.6), modelr, cowplot, patchwork, covr, gdtools,
rmarkdown, png, fda, forcats, purrr (>= 0.2.3), tidyr (>=
1.0.0), beeswarm (>= 0.4.0), posterior, pkgdown, palmerpenguins
knitr, testthat, rmarkdown, viridisLite, extrafont
agridat, knitr, lattice, rmarkdown, testthat
agridat, knitr, lattice, rgl, rmarkdown, testthat
knitr, rmarkdown, testthat (>= 2.1.0), clipr, labelled,
patchwork, vdiffr, covr
AER, betareg, brms, effects (>= 4.0-0), emmeans, gam, gamm4,
gee, geepack, ggplot2, GLMMadaptive, glmmTMB, knitr, lme4,
logistf, Matrix, MCMCglmm, mgcv, nlme, ordinal, prediction,
pscl, quantreg, rmarkdown, rms, robust, robustbase, rstanarm,
rstantools, sandwich, sjstats, survey, survival, testthat, VGAM
AER, aod, betareg, brms, effects (>= 4.0-0), emmeans, gam,
gamm4, gee, geepack, ggplot2, GLMMadaptive, glmmTMB, httr,
knitr, lme4, logistf, Matrix, MCMCglmm, mgcv, nlme, ordinal,
prediction, pscl, quantreg, rmarkdown, rms, robust, robustbase,
rstanarm, rstantools, sandwich, see, sjstats, survey, survival,
testthat, VGAM
AER, aod, betareg, brms, effects (>= 4.1-0), emmeans, gam,
gamm4, gee, geepack, ggplot2, GLMMadaptive, glmmTMB, httr,
knitr, lme4, logistf, Matrix, MCMCglmm, mgcv, nlme, ordinal,
prediction, pscl, quantreg, rmarkdown, rms, robust, robustbase,
rstanarm, rstantools, sandwich, see, sjstats, survey, survival,
testthat, VGAM
AER, aod, betareg, brms, effects (>= 4.1-2), emmeans, gam,
gamm4, gee, geepack, ggplot2, GLMMadaptive, glmmTMB, httr,
knitr, lme4, logistf, Matrix, MCMCglmm, mgcv, nlme, ordinal,
prediction, pscl, quantreg, rmarkdown, rms, robust, robustbase,
rstanarm, rstantools, sandwich, scales, see, sjstats, survey,
survival, testthat, VGAM
AER, aod, betareg, brms, effects (>= 4.1-2), emmeans (>=
1.4.1), gam, gamm4, gee, geepack, ggplot2, GLMMadaptive,
glmmTMB, httr, knitr, lme4, logistf, Matrix, MCMCglmm, mgcv,
nlme, ordinal, prediction, pscl, quantreg, rmarkdown, rms,
robust, robustbase, rstanarm, rstantools, sandwich, scales,
see, sjstats, survey, survival, testthat, VGAM
AER, aod, betareg, brms, clubSandwich, effects (>= 4.1-2),
emmeans (>= 1.4.1), gam, gamm4, gee, geepack, ggplot2,
GLMMadaptive, glmmTMB, httr, knitr, lme4, logistf, magrittr,
Matrix, MCMCglmm, mgcv, nlme, ordinal, prediction, pscl,
quantreg, rmarkdown, rms, robustbase, rstanarm, rstantools,
sandwich, scales, see, sjstats, sjmisc (>= 2.8.2), survey,
survival, testthat, VGAM
AER, aod, betareg, brms, clubSandwich, effects (>= 4.1-2),
emmeans (>= 1.4.1), gam, gamm4, gee, geepack, ggplot2,
GLMMadaptive, glmmTMB (>= 1.0.0), httr, knitr, lme4, logistf,
magrittr, Matrix, MCMCglmm, mgcv, nlme, ordinal, prediction,
pscl, quantreg, rmarkdown, rms, robustbase, rstanarm,
rstantools, sandwich, see, sjstats, sjmisc (>= 2.8.2), survey,
survival, testthat, VGAM
knitr, MASS, rmarkdown, rstanarm, snakecase
glmmTMB, knitr, lme4, MASS, nlme, rmarkdown, rstantools,
survey, testthat
effects (>= 4.0-0), glmmTMB, knitr, nlme, pscl, rmarkdown,
rstanarm, rstantools, sandwich, survey, survival, testthat
brms, effects (>= 4.0-0), emmeans, glmmTMB, knitr, nlme,
pscl, rmarkdown, rstanarm, rstantools, sandwich, survey,
survival, testthat
AER, betareg, brms, effects (>= 4.0-0), emmeans, gam, gamm4,
gee, ggplot2, GLMMadaptive, glmmTMB, knitr, lme4, Matrix,
MCMCglmm, mgcv, nlme, ordinal, prediction, pscl, rmarkdown,
rstanarm, rstantools, rstudioapi, sandwich, sjstats, survey,
survival, testthat, VGAM
AER, aod, betareg, brms, clubSandwich, effects (>= 4.1-2),
emmeans (>= 1.4.1), gam, gamm4, gee, geepack, ggplot2,
GLMMadaptive, glmmTMB (>= 1.0.0), httr, knitr, lme4, logistf,
magrittr, Matrix, mice, MCMCglmm, mgcv, nlme, ordinal,
prediction, pscl, quantreg, rmarkdown, rms, robustbase,
rstanarm, rstantools, sandwich, see, sjstats, sjmisc (>=
2.8.2), survey, survival, testthat, VGAM
AER, aod, betareg, brms, clubSandwich, effects (>= 4.1-2),
emmeans (>= 1.4.1), gam, gamlss, gamm4, gee, geepack, ggplot2,
GLMMadaptive, glmmTMB (>= 1.0.0), gridExtra, haven, httr,
knitr, lme4, logistf, magrittr, margins, Matrix, mice,
MCMCglmm, mgcv, nlme, ordinal, parameters, prediction, pscl,
quantreg, rmarkdown, rms, robustbase, rstanarm, rstantools,
sandwich, see, sjstats, sjmisc (>= 2.8.2), survey, survival,
testthat, VGAM
AER, aod, betareg, brms, clubSandwich, effects (>= 4.1-2),
emmeans (>= 1.4.1), gam, gamlss, gamm4, gee, geepack, ggplot2,
GLMMadaptive, glmmTMB (>= 1.0.0), gridExtra, haven, httr,
knitr, lme4, logistf, magrittr, margins, Matrix, mice,
MCMCglmm, mgcv, nlme, ordinal, parameters, patchwork,
prediction, pscl, quantreg, rmarkdown, rms, robustbase,
rstanarm, rstantools, sandwich, see, sjstats, sjmisc (>=
2.8.2), survey, survival, testthat, VGAM
AER, aod, betareg, brms, clubSandwich, effects (>= 4.1-2),
emmeans (>= 1.4.1), gam, gamlss, gamm4, gee, geepack, ggplot2,
GLMMadaptive, glmmTMB (>= 1.0.0), gridExtra, haven, httr,
knitr, lme4, logistf, magrittr, margins, MASS, Matrix, mice,
MCMCglmm, mgcv, nlme, ordinal, parameters, patchwork,
prediction, pscl, quantreg, rmarkdown, rms, robustbase,
rstanarm, rstantools, sandwich, see, sjlabelled (>= 1.1.2),
sjstats, sjmisc (>= 2.8.2), survey, survival, testthat, VGAM
testthat, knitr, rmarkdown, tidyr, magrittr, tibble, rstan
testthat, knitr, rmarkdown, tidyr, magrittr, tibble
knitr, rmarkdown, testthat, vdiffr, spelling
knitr, rmarkdown, sessioninfo, concaveman, deldir, reshape2,
units (>= 0.4-6)
sessioninfo, concaveman, deldir, reshape2, units (>= 0.4-6)
sessioninfo, concaveman, deldir, reshape2, units (>= 0.4-6),
covr
sessioninfo, concaveman, deldir, latex2exp, reshape2, units
(>= 0.4-6), covr
tidyr, mosaicData, dplyr, lattice, mosaic, palmerpenguins,
testthat, vdiffr, knitr, rmarkdown, lubridate, survival, broom,
maps, maptools, rgeos, sf, purrr, ggthemes, covr, ggplot2movies
dplyr, testthat, mosaicData, knitr, statisticalModeling,
rmarkdown, weatherData, lubridate
mosaic, dplyr, testthat, mosaicData, knitr,
statisticalModeling, rmarkdown, weatherData, lubridate
lattice, mosaic, dplyr, testthat, mosaicData, knitr,
mosaicModel, rmarkdown, weatherData, lubridate
lattice, mosaic, dplyr, testthat, mosaicData, knitr,
mosaicModel, rmarkdown, lubridate, survival, broom, scales
lattice, mosaic, dplyr, testthat, mosaicData, knitr,
statisticalModeling, rmarkdown, weatherData, lubridate
lattice, mosaic, dplyr, testthat, mosaicData, knitr,
mosaicModel, rmarkdown, lubridate, survival, broom, scales,
maps, ggthemes
lattice, mosaic, mosaicModel, mosaicData, testthat, knitr,
rmarkdown, lubridate, survival, broom, scales, maps, maptools,
rgeos, sf, purrr, ggthemes
dplyr, lattice, mosaic, mosaicModel, mosaicData, testthat,
vdiffr, knitr, rmarkdown, lubridate, survival, broom, scales,
maps, maptools, rgeos, sf, purrr, ggthemes
mosaicData, dplyr, lattice, mosaic, mosaicModel, testthat,
vdiffr, knitr, rmarkdown, lubridate, survival, broom, scales,
maps, maptools, rgeos, sf, purrr, ggthemes
mosaicData, dplyr, lattice, mosaic, mosaicModel, testthat,
vdiffr, knitr, rmarkdown, lubridate, survival, broom, scales,
maps, maptools, rgeos, sf, purrr, ggthemes, covr, ggplot2movies
tidyr, mosaicData, dplyr, lattice, mosaic, mosaicModel,
testthat, vdiffr, knitr, rmarkdown, lubridate, survival, broom,
scales, maps, maptools, rgeos, sf, purrr, ggthemes, covr,
ggplot2movies
testthat, cluster, changepoint, dlm, fGarch, forecast,
grDevices, KFAS, knitr, MASS, MSwM, nlme, stats, strucchange,
survival, timeSeries, tseries, utils, vars, xts, zoo, lfda
testthat, cluster, changepoint, dlm, fGarch, forecast,
glmnet, grDevices, KFAS, knitr, MASS, MSwM, nlme, stats,
strucchange, survival, timeSeries, tseries, utils, vars, xts,
zoo, lfda
testthat, cluster, changepoint, dlm, fGarch, forecast,
ggrepel, glmnet, grDevices, KFAS, knitr, mapdata, MASS, MSwM,
nlme, sp, stats, strucchange, survival, timeSeries, tseries,
utils, vars, xts, zoo, lfda
testthat, cluster, changepoint, dlm, fGarch, forecast,
ggrepel, glmnet, grDevices, KFAS, knitr, mapdata, MASS, MSwM,
nlme, raster, sp, stats, strucchange, survival, timeSeries,
tseries, utils, vars, xts, zoo, lfda
testthat, cluster, changepoint, dlm, fGarch, forecast,
ggrepel, glmnet, grDevices, KFAS, knitr, lintr, mapdata, MASS,
MSwM, nlme, raster, ROCR, sp, stats, strucchange, survival,
timeSeries, tseries, utils, vars, xts, zoo, lfda
testthat, cluster, changepoint, dlm, fGarch, forecast,
ggrepel, glmnet, grDevices, KFAS, knitr, lintr, mapdata,
markdown, MASS, MSwM, nlme, raster, ROCR, sp, stats,
strucchange, survival, timeSeries, tseries, utils, vars, xts,
zoo, lfda
testthat, cluster, changepoint, fGarch, forecast, ggrepel,
glmnet, grDevices, KFAS, knitr, lintr, mapdata, markdown, MASS,
MSwM, nlme, raster, ROCR, sp, stats, strucchange, survival,
timeSeries, tseries, utils, vars, xts, zoo, lfda
ggplotify, knitr, rmarkdown, prettydoc, tidyr, ggnewscale
covr, knitr, rmarkdown, farver (>= 2.1.0)
testthat, knitr, rmarkdown, vdiffr, spelling
knitr, mapproj, maps, rmarkdown, testthat (>= 2.1.0), vdiffr
(>= 0.3.1)
covr, digest, fitdistrplus, ggdendro, knitr, MASS, rmarkdown,
stats, testthat (>= 2.1.0), utils
covr, digest, fitdistrplus, ggdendro, vdiffr, knitr, MASS,
rmarkdown, stats, testthat (>= 3.0.0), utils
covr, digest, fitdistrplus, ggdendro, vdiffr, knitr, MASS,
rmarkdown, testthat (>= 3.0.0), utils
spelling, knitr, testthat (>= 2.1.0), vdiffr, rmarkdown, covr
testthat, knitr, rmarkdown, sf, vdiffr (>= 0.3.0)
knitr, rmarkdown, sf, testthat, vdiffr (>= 0.3.0)
geomtextpath, knitr, rmarkdown, sf, testthat, vdiffr (>=
0.3.0)
ape, ggtree (>= 1.10.1), knitr, prettydoc
ape, ggtree, gridGraphics, knitr, prettydoc, rsvg, stringi
ape, ggtree, gridGraphics, knitr, prettydoc, rsvg
knitr (>= 1.15), rmarkdown, dplyr, testthat (>= 1.0.1), covr
(>= 2.2.2)
dplyr (>= 1.0.0), knitr, rmarkdown, testthat
knitr, rmarkdown, maps, shiny, sf (>= 0.3-4), dplyr
knitr, testthat, rmarkdown, maps, shiny, sf (>= 0.3-4), dplyr
knitr, testthat, rmarkdown, maps, shiny, sf (>= 0.7-3),
quantreg, dplyr
knitr, testthat, rmarkdown, maps, shiny, sf (>= 0.7-3),
quantreg, xml2 (>= 1.0.0), dplyr
knitr, tinytest, rmarkdown, maps, hexbin, shiny, sf (>= 1.0),
ggrepel (>= 0.9.1), quantreg, xml2 (>= 1.0), dplyr
TH.data, maps, gcookbook, knitr, rmarkdown, testthat
TH.data, moonBook, maps, gcookbook, knitr, rmarkdown,
testthat
TH.data, ggforce, webshot, ztable, moonBook, maps, gcookbook,
knitr, rmarkdown, testthat
knitr, ggplot2movies, cowplot, forcats, tidyverse, viridis
covr, gridExtra, ggplot2movies, forcats, knitr, tidyverse,
testthat, vdiffr, viridis
rmarkdown, knitr, testthat, vdiffr, tibble, tidyr, dplyr,
covr
rmarkdown, knitr, testthat (>= 3.0.0), vdiffr, tibble, tidyr,
dplyr, covr
coda, knitr, rmarkdown, ggthemes, gridExtra, Cairo, extrafont
coda, rstan (>= 2.10.1), knitr, rmarkdown, ggthemes,
gridExtra, Cairo, extrafont
coda, rstan (>= 2.10.1), nimble, knitr, rmarkdown, ggthemes,
gridExtra, Cairo, extrafont
coda, rstan (>= 2.17.1), nimble, knitr, rmarkdown, ggthemes,
gridExtra, Cairo, extrafont
covr, knitr, plotly, rmarkdown, testthat (>= 3.0.0)
RSpectra, popkin, bnpsd, testthat, covr, knitr, rmarkdown
gridExtra, knitr, NHANES, rmarkdown, patchwork
ape, cowplot, ggtree, knitr, methods, prettydoc, rmarkdown,
seqmagick
ape, cowplot, ggtree, knitr, methods, seqmagick
ape, cowplot, ggtree (>= 1.17.1), knitr, methods, prettydoc,
rmarkdown, seqmagick,
ggtreeExtra, ggtree (>= 1.17.1), ape, cowplot, knitr,
prettydoc, rmarkdown, seqmagick, readxl, ggnewscale,
kableExtra, gggenes
png, tools, stringr, magrittr, gridExtra, tibble, testthat,
grDevices, knitr, rmarkdown, tidyverse, gtable, covr, maps,
nycflights13, ggplot2movies
png, tools, stringr, markdown, magrittr, gridExtra, tibble,
testthat, grDevices, knitr, rmarkdown, tidyverse, gtable, covr,
maps, nycflights13, ggplot2movies
covr, ggraph, igraph, spelling, testthat (>= 3.0.0), vdiffr
testthat, dplyr, backports, knitr, rmarkdown, stringi, covr
tidyr, magrittr, knitr, testthat, rmarkdown, purrr, ggrepel,
scales
testthat, mlbench, AER, coin, vdiffr, knitr, rmarkdown,
pander, MASS, TH.data
ambient, dplyr, gganimate, knitr, magick, mapproj, maps, png,
ragg (>= 1.2.0), readr, rmarkdown, sf (>= 0.7-3), testthat (>=
2.1.0), vdiffr
knitr, rmarkdown, purrr, testthat, GGally
covr, knitr, maps, rmarkdown, testthat, vdiffr
quantreg, Hmisc, mapproj, maps, digest, butler
quantreg, Hmisc, mapproj, maps, digest, colorspace
quantreg, Hmisc, mapproj, maps, digest, colorspace, hexbin
quantreg, Hmisc, mapproj, maps, digest, colorspace, hexbin,
gpclib, maptools
quantreg, Hmisc, mapproj, maps, colorspace, hexbin, gpclib,
maptools
quantreg, Hmisc, mapproj, maps, hexbin, gpclib, maptools
quantreg, Hmisc, mapproj, maps, hexbin, gpclib, maptools,
multcomp, nlme
quantreg, Hmisc, mapproj, maps, hexbin, gpclib, maptools,
multcomp, nlme, testthat
quantreg, Hmisc, mapproj, maps, hexbin, maptools, multcomp,
nlme, testthat
quantreg, Hmisc, mapproj, maps, hexbin, maptools, multcomp,
nlme, testthat, knitr, mgcv
ggplot2movies, hexbin, Hmisc, mapproj, maps, maptools, mgcv,
multcomp, nlme, testthat, quantreg, knitr
covr, ggplot2movies, hexbin, Hmisc, lattice, mapproj, maps,
maptools, mgcv, multcomp, nlme, testthat (>= 0.11.0), quantreg,
knitr, rpart, rmarkdown, svglite
covr, dplyr, ggplot2movies, hexbin, Hmisc, lattice, mapproj,
maps, maptools, multcomp, munsell, nlme, testthat (>= 0.11.0),
vdiffr, quantreg, knitr, rgeos, rpart, rmarkdown, sf (>=
0.3-4), svglite (>= 1.2.0.9001)
covr, dplyr, ggplot2movies, hexbin, Hmisc, knitr, lattice,
mapproj, maps, maptools, multcomp, munsell, nlme, profvis,
quantreg, rgeos, rmarkdown, rpart, sf (>= 0.7-3), svglite (>=
1.2.0.9001), testthat (>= 0.11.0), vdiffr (>= 0.3.0)
covr, dplyr, ggplot2movies, hexbin, Hmisc, knitr, lattice,
mapproj, maps, maptools, multcomp, munsell, nlme, profvis,
quantreg, rgeos, rmarkdown, rpart, sf (>= 0.7-3), svglite (>=
1.2.0.9001), testthat (>= 2.1.0), vdiffr (>= 0.3.0)
covr, dplyr, ggplot2movies, hexbin, Hmisc, knitr, lattice,
mapproj, maps, maptools, multcomp, munsell, nlme, profvis,
quantreg, RColorBrewer, rgeos, rmarkdown, rpart, sf (>= 0.7-3),
svglite (>= 1.2.0.9001), testthat (>= 2.1.0), vdiffr (>= 0.3.0)
covr, ragg, dplyr, ggplot2movies, hexbin, Hmisc, interp,
knitr, lattice, mapproj, maps, maptools, multcomp, munsell,
nlme, profvis, quantreg, RColorBrewer, rgeos, rmarkdown, rpart,
sf (>= 0.7-3), svglite (>= 1.2.0.9001), testthat (>= 2.1.0),
vdiffr (>= 0.3.0), xml2
covr, ragg, dplyr, ggplot2movies, hexbin, Hmisc, interp,
knitr, lattice, mapproj, maps, maptools, multcomp, munsell,
nlme, profvis, quantreg, RColorBrewer, rgeos, rmarkdown, rpart,
sf (>= 0.7-3), svglite (>= 1.2.0.9001), testthat (>= 2.1.0),
vdiffr (>= 1.0.0), xml2
covr, dplyr, ggplot2movies, hexbin, Hmisc, knitr, lattice,
mapproj, maps, maptools, multcomp, munsell, nlme, profvis,
quantreg, ragg, RColorBrewer, rgeos, rmarkdown, rpart, sf (>=
0.7-3), svglite (>= 1.2.0.9001), testthat (>= 3.1.2), vdiffr
(>= 1.0.0), xml2
colorspace, cowplot, ggimage, knitr, lattice, prettydoc, vcd
aplot, colorspace, cowplot, ggimage, knitr, rmarkdown,
lattice, prettydoc, vcd, utils
knitr, covr, testthat (>= 3.0.0), rmarkdown, ragg, ggtext
knitr, covr, testthat (>= 3.0.0), rmarkdown, ragg, scales,
ggtext, ggrepel, vdiffr (>= 1.0.0)
ezcox, ggnewscale, knitr, rmarkdown, survival
ezcox, ggnewscale, knitr, rmarkdown, survival, cli
covr, dplyr, ggbeeswarm, ggnewscale, knitr, magrittr,
patchwork, rmarkdown, rstatix, tidyr, tinytest
grDevices, knitr, RColorBrewer, gtable, testthat
network, knitr, rmarkdown, purrr, tibble, seriation, deldir,
gganimate
network, knitr, rmarkdown, purrr, tibble, seriation, deldir,
gganimate, covr
knitr, rmarkdown, testthat, gridExtra, devtools, prettydoc
knitr, rmarkdown, testthat, gridExtra, devtools, prettydoc,
ggbeeswarm, dplyr, magrittr, readr, stringr
knitr, rmarkdown, testthat, svglite, vdiffr, gridExtra,
devtools, prettydoc, ggbeeswarm, dplyr, magrittr, readr,
stringr, withr
covr, dplyr, gridExtra, ggplot2movies, DAAG, forcats, knitr,
rmarkdown, testthat, vdiffr, viridis
covr, dplyr, patchwork, ggplot2movies, forcats, knitr,
rmarkdown, testthat, vdiffr
ComplexHeatmap, knitr, rmarkdown, reshape2, utils
knitr, here, rmarkdown, freesurfer, covr, vdiffr, testthat
(>= 2.1.0), devtools, spelling
knitr, here, rmarkdown, covr, vdiffr, devtools, testthat (>=
2.1.0), spelling
knitr, rmarkdown, covr, testthat (>= 2.1.0), devtools,
processx, spelling
covr, ggthemes, hrbrthemes, knitr, rmarkdown, testthat (>=
3.0.0), TraMineRextras
covr, ggthemes, hrbrthemes, knitr, rmarkdown, testthat (>=
3.0.0)
tidyr, dplyr, testthat, knitr, rmarkdown, vdiffr, ggdendro,
viridis
tidyr, dplyr, testthat (>= 3.0.3), knitr, rmarkdown, vdiffr
(>= 1.0.0), ggdendro, viridis
knitr, rmarkdown, spelling, testthat, vdiffr,
knitr, rmarkdown, spelling, testthat, vdiffr (>= 1.0.0)
knitr, rmarkdown, spelling, testthat, vdiffr (>= 1.0.2)
knitr, rmarkdown, testthat, vdiffr (>= 1.0.2)
prettymapr, mapproj, knitr, rmarkdown, sp, rgdal, testthat,
dplyr, withr, ggrepel, covr
prettymapr, mapproj, knitr, rmarkdown, sp, rgdal, testthat,
dplyr, withr, ggrepel, stars, covr
prettymapr, knitr, rmarkdown, sp, rgdal, raster, testthat (>=
2.1.0), dplyr, withr, ggrepel, stars, covr, vdiffr
prettymapr, knitr, rmarkdown, sp, rgdal, raster, testthat (>=
2.1.0), dplyr, withr, ggrepel, stars, covr, vdiffr, lwgeom
prettymapr, knitr, rmarkdown, sp, rgdal, raster, terra,
testthat (>= 3.0.0), dplyr, withr, ggrepel, stars, covr,
vdiffr, lwgeom
covr, Hmisc, testthat, vdiffr (>= 0.3.0)
covr, Hmisc, testthat, vdiffr (>= 1.0.4)
broom, emmeans, knitr, labelled, reshape, rmarkdown, nnet,
testthat (>= 3.0.0), spelling, survey, survival, vdiffr
broom, emmeans, glue, knitr, labelled, reshape, rmarkdown,
nnet, testthat (>= 3.0.0), spelling, survey, survival, vdiffr
broom, broom.mixed, glmmTMB, gmm, knitr, lme4, MCMCglmm,
ordinal, readr, rmarkdown, robust, spelling, survival, testthat
broom, broom.mixed, glmmTMB, knitr, lme4, MASS, MCMCglmm,
ordinal, readr, rmarkdown, robust, spelling, survival, testthat
datasets, gapminder, grDevices, knitr, rmarkdown
ggplot2movies, gapminder (>= 0.3.0), knitr, rmarkdown
ggplot2movies, gapminder (>= 0.3.0), lme4, ordinal, knitr,
rmarkdown, testthat, vdiffr, spelling
ggplot2movies, gapminder (>= 0.3.0), knitr, lme4 (>= 1.1-17),
MASS, ordinal (>= 2018.4-19), robust (>= 0.4-18), plyr (>=
1.8.4), rmarkdown, spelling, testthat, vdiffr
car (>= 3.0-2), devtools, ggplot2movies, ggthemes (>= 4.0.0),
gapminder (>= 0.3.0), hrbrthemes (>= 0.5.0.1), knitr, lme4 (>=
1.1-17), mgcv, MASS, ordinal (>= 2018.4-19), plyr (>= 1.8.4),
quantreg(>= 5.36), readr (>= 1.1.1), robust (>= 0.4-18),
rmarkdown, spelling (>= 1.2), stringr (>= 1.3.1), testthat,
vdiffr
devtools, ggthemes (>= 4.0.0), gmm, gapminder (>= 0.3.0),
glmmTMB (>= 0.2.2.0), hrbrthemes (>= 0.5.0.1), knitr, lme4 (>=
1.1-19), lmodel2, MASS, ordinal (>= 2018.8-25), plyr (>=
1.8.4), quantreg (>= 5.38), robust (>= 0.4-18), readr (>=
1.3.0), rmarkdown, spelling (>= 2.0), stringr (>= 1.3.1),
survival, testthat, vdiffr
broom, broom.mixed, jmv, knitr, lme4, MASS, MCMCglmm,
ordinal, rmarkdown, spelling, stringr, survival, testthat
afex, BayesFactor (>= 0.9.12-4.4), gapminder, ggcorrplot (>=
0.1.4), ggside (>= 0.2.1), knitr, lme4, MASS, metaBMA, metafor,
metaplus, PMCMRplus, psych, rmarkdown, spelling, survival,
testthat (>= 3.1.5), tibble, vdiffr, WRS2
broom, broom.mixed, knitr, lme4, MASS, MCMCglmm, mixor,
ordinal, rmarkdown, spelling, survival, testthat
forcats, knitr, lme4, MASS, MCMCglmm, ordinal, rmarkdown,
spelling, survival, testthat, tibble, WRS2
forcats, knitr, lme4, MASS, ordinal, rmarkdown, spelling,
survival, testthat, tibble, WRS2
forcats, knitr, lme4, MASS, rmarkdown, spelling, testthat,
tibble, WRS2
forcats, knitr, MASS, rmarkdown, spelling, testthat, tibble,
WRS2
forcats, knitr, MASS, metaBMA, metafor, rmarkdown, spelling,
testthat, tibble, vdiffr, WRS2
afex, forcats, knitr, MASS, metaBMA, metafor, rmarkdown,
spelling, testthat, tibble, vdiffr, WRS2
afex, forcats, ggExtra, knitr, MASS, metaBMA, metafor,
rmarkdown, spelling, testthat, tibble, vdiffr, WRS2
afex, forcats, ggcorrplot, ggExtra, knitr, MASS, metaBMA,
metafor, rmarkdown, spelling, testthat, tibble, vdiffr, WRS2
afex (>= 1.0-1), forcats, ggcorrplot, ggside (>= 0.1.2),
knitr, MASS, metaBMA, metafor, rmarkdown, spelling, survival,
testthat (>= 3.1.0), tibble, vdiffr
afex, BayesFactor (>= 0.9.12-4.3), forcats, gapminder,
ggcorrplot, gginnards, ggside, knitr, lme4, MASS, metaBMA,
metafor, PMCMRplus, psych, rmarkdown, spelling, survival,
testthat (>= 3.1.0), tibble, vdiffr
afex, BayesFactor (>= 0.9.12-4.3), gapminder, ggcorrplot,
ggside, knitr, lme4, MASS, metaBMA, metafor, PMCMRplus, psych,
rmarkdown, spelling, survival, testthat (>= 3.1.4), tibble,
vdiffr, WRS2
afex, BayesFactor (>= 0.9.12-4.4), gapminder, ggcorrplot,
ggside, knitr, lme4, MASS, metaBMA, metafor, metaplus,
PMCMRplus, psych, rmarkdown, spelling, survival, testthat (>=
3.1.4), tibble, vdiffr, WRS2
covr, glue, knitr, rmarkdown, scales, spelling, testthat (>=
3.0.0), tidycmprsk, vdiffr (>= 1.0.0)
covr, knitr, rmarkdown, spelling, testthat (>= 3.0.0),
tidycmprsk (>= 0.2.0), vdiffr (>= 1.0.0)
plyr, reshape2, testthat, data.table, knitr
dplyr, plyr, reshape2, testthat, data.table, knitr, rmarkdown
cowplot, dplyr, glue, knitr, rmarkdown, testthat, vdiffr
knitr, plyr, reshape2, extrafont, pander
knitr, plyr, reshape2, extrafont, pander, maps, mapproj
extrafont, knitr, maps, mapproj, pander, plyr, reshape2
extrafont, knitr, lintr, maps, mapproj, pander, plyr,
reshape2, rmarkdown, testthat
extrafont, knitr, lintr, maps, mapproj, pander, plyr,
reshape2, rmarkdown, testthat, tidyverse
dplyr, extrafont, knitr, lintr, maps, mapproj, pander, purrr,
rmarkdown, testthat, tibble, tidyr
spelling, dplyr, extrafont, knitr, lintr, maps, mapproj,
pander, purrr, rmarkdown, testthat, tibble, tidyr
dplyr, covr, extrafont, glue, knitr, lintr, maps, mapproj,
pander, rlang, rmarkdown, spelling, testthat, tidyr, vdiffr,
withr
dplyr, covr, extrafont, glue, knitr, lattice, lintr, maps,
mapproj, pander, rlang, rmarkdown, spelling, testthat, tidyr,
vdiffr, withr
rmarkdown, knitr, testthat (>= 3.0.0), covr, magick
stringr, rmarkdown, knitr, testthat (>= 3.0.0), covr, magick
covr, knitr, magick, rmarkdown, testthat (>= 3.0.0), tinytex
covr, knitr, rmarkdown, tidyr, tibble, dplyr, testthat (>=
3.0.0), vdiffr (>= 1.0.0)
MASS, mgcv, testthat (>= 0.8.1), knitr (>= 1.6)
MASS, mgcv, testthat (>= 0.8.1), knitr (>= 1.6), rmarkdown
MASS, mgcv, lubridate, testthat (>= 0.8.1), knitr (>= 1.6),
rmarkdown
knitr, rmarkdown, ggmap, dplyr, scales, testthat, vdiffr
knitr, rmarkdown, ggmap, dplyr, scales, testthat, vdiffr,
mapproj
testthat (>= 2.0.0), knitr, rmarkdown, ggrepel
testthat (>= 2.0.0), knitr, rmarkdown, ggrepel, wordcloud,
wordcloud2
testthat (>= 2.0.0), knitr, rmarkdown, ggrepel, wordcloud,
wordcloud2, covr, dplyr, tidyr
covr, knitr, rmarkdown, rprojroot, spelling, testthat (>=
2.3.2), withr
covr, knitr, mockery, rmarkdown, rprojroot, spelling,
testthat (>= 2.3.2), withr
covr, knitr, mockery, rmarkdown, rprojroot, spelling,
testthat (>= 3.0.0), withr
here, knitr, rmarkdown, sodium, styler, usethis, gert, readr,
gitcreds
testthat, knitr, rmarkdown, bookdown,
GeneralisedCovarianceMeasure, ggplot2, reshape2
testthat, knitr, rmarkdown, bookdown,
GeneralisedCovarianceMeasure, ggplot2, reshape2, dplyr, tidyr
ggplot2, dplyr, knitr, rmarkdown, testthat
ggplot2, dplyr, knitr, rmarkdown, testthat, crayon, cowplot,
codemetar
ggplot2, dplyr, knitr, rmarkdown, testthat, crayon, cowplot,
codemeta
BiasedUrn, igraph, knitr, rmarkdown, ggplot2, texreg, ggraph
BiasedUrn, igraph, knitr, rmarkdown, ggplot2, ggraph
BiasedUrn, igraph, knitr, rmarkdown, ggplot2, ggraph,
testthat (>= 3.0.0)
rgl, grDevices, testthat, knitr, rmarkdown
rgl, grDevices, testthat, knitr, rmarkdown, covr
DAAG, dplyr, ggplot2, graphics, HSAUR, knitr, MASS (>=
7.3-39), rmarkdown, spelling, stringi, testthat (>= 3.0.0),
tibble, tidyr, withr
cartography (>= 2.0.0), colorspace, eurostat, lwgeom,
tinytest, knitr, rmarkdown
cartography (>= 2.0.0), colorspace, lwgeom, tinytest, knitr,
rmarkdown
cartography (>= 2.4), lwgeom, tinytest, knitr, rmarkdown
tmap (>= 3.0), tinytest, knitr, rmarkdown
eurostat, ggplot2 (>= 3.0.0), knitr, rmarkdown, testthat (>=
3.0.0)
eurostat, ggplot2 (>= 3.0.0), knitr, lwgeom (>= 0.2-2),
rmarkdown, testthat (>= 3.0.0)
spelling, ggplot2, knitr, microbenchmark, rmarkdown, testthat
ggplot2, knitr, microbenchmark, rmarkdown, spelling, testthat
testthat, knitr, mockery, oskeyring, rmarkdown, withr
codetools, testthat, knitr, mockery, oskeyring, rmarkdown,
withr
codetools, covr, knitr, mockery, oskeyring, rmarkdown,
testthat (>= 3.0.0), withr
testthat, ggplot2, lubridate, knitr, rmarkdown
covr, knitr, rmarkdown, spelling, testthat (>= 2.1.0)
devtools (>= 1.8.0), roxygen2, testthat, R.rsp, knitr
devtools (>= 1.8.0), roxygen2, testthat, R.rsp, knitr, shiny
(>= 0.13.0)
devtools (>= 1.8.0), roxygen2, testthat (>= 1.0.2), R.rsp,
knitr, shiny (>= 0.13.0)
knitr, rmarkdown, testthat (>= 1.0.2), yaml
knitr, rmarkdown, testthat (>= 3.0.0), yaml
covr (>= 3.0.1), spelling (>= 2.0), testthat (>= 2.0.0.9000),
rmarkdown, fs, rprojroot, shiny
rtracklayer, GenomicRanges, BSgenome,
BSgenome.Hsapiens.UCSC.hg18.masked,
BSgenome.Hsapiens.UCSC.hg19.masked, BiocGenerics, Biostrings,
GenomeInfoDb, IRanges, S4Vectors
testthat (>= 2.1.0), covr, spelling, knitr, rmarkdown, skimr
knitr, rmarkdown, testthat, gclus, corrplot, lattice
rmarkdown, testthat, gclus, corrplot, lattice
knitr, rmarkdown, schlegel, ggplot2, devtools
testthat (>= 2.1.0), lme4, nlme, datasets
testthat (>= 2.1.0), lme4, nlme, datasets, nnet, survival,
lmerTest, mgcv, gam, multcomp
knitr, rmarkdown, kableExtra, DESeq2, edgeR, emmeans
knitr, testthat, MASS, lattice, ggplot2, mlmRev, bbmle, pscl,
MCMCpack, coda, reshape2
knitr, testthat, MASS, lattice, ggplot2, mlmRev, bbmle (>=
1.0.19), pscl, MCMCpack, coda, reshape2
knitr, rmarkdown, testthat, MASS, lattice, ggplot2, mlmRev,
bbmle (>= 1.0.19), pscl, MCMCpack, coda, reshape2
knitr, rmarkdown, testthat, MASS, lattice, ggplot2, mlmRev,
bbmle (>= 1.0.19), pscl, MCMCpack, coda, reshape2, plyr
knitr, rmarkdown, testthat, MASS, lattice, ggplot2 (>=
2.2.1), mlmRev, bbmle (>= 1.0.19), pscl, coda, reshape2, car,
emmeans, estimability, DHARMa, multcomp, MuMIn, effects,
dotwhisker, broom, plyr, png, boot
knitr, rmarkdown, testthat, MASS, lattice, ggplot2 (>=
2.2.1), mlmRev, bbmle (>= 1.0.19), pscl, coda, reshape2, car
(>= 3.0.6), emmeans (>= 1.4), estimability, DHARMa, multcomp,
MuMIn, effects (>= 4.0-1), dotwhisker, broom, broom.mixed,
plyr, png, boot, texreg, xtable, huxtable
knitr, rmarkdown, testthat, MASS, lattice, ggplot2 (>=
2.2.1), mlmRev, bbmle (>= 1.0.19), pscl, coda, reshape2, car
(>= 3.0.6), emmeans (>= 1.4), estimability, DHARMa, multcomp,
MuMIn, effects (>= 4.0-1), dotwhisker, broom, broom.mixed,
plyr, png, boot, texreg, xtable, huxtable, numDeriv
knitr, rmarkdown, testthat, MASS, lattice, ggplot2 (>=
2.2.1), mlmRev, bbmle (>= 1.0.19), pscl, coda, reshape2, car
(>= 3.0.6), emmeans (>= 1.4), estimability, DHARMa, multcomp,
MuMIn, effects (>= 4.0-1), dotwhisker, broom, broom.mixed,
plyr, png, boot, texreg, xtable, huxtable, mvabund
knitr, rmarkdown, testthat, MASS, lattice, ggplot2 (>=
2.2.1), mlmRev, bbmle (>= 1.0.19), pscl, coda, reshape2, car
(>= 3.0.6), emmeans (>= 1.4), estimability, DHARMa, multcomp,
MuMIn, effects (>= 4.0-1), dotwhisker, broom, broom.mixed,
plyr, png, boot, texreg, xtable, huxtable, mvabund, parallel
glmmTMB (>= 0.2.1), testthat (>= 0.11.0), pbapply (>= 1.3.0),
parallel (>= 3.0.0), knitr, rmarkdown
glmmTMB (>= 0.2.1), testthat (>= 0.11.0), parallel (>=
3.0.0), future.apply (>= 1.1.0), knitr, rmarkdown, covr
glmmTMB (>= 1.1.0), testthat (>= 0.11.0), parallel (>=
3.0.0), future.apply (>= 1.1.0), knitr, rmarkdown, covr
testthat, parallel, bayesplot, knitr, rmarkdown, viridis,
coda
bayesplot, coda, knitr, parallel, rmarkdown, testthat,
viridis
BradleyTerry2, hglm.data, knitr, rmarkdown, testthat
BradleyTerry2, knitr, mdhglm, rmarkdown, testthat
knitr, rmarkdown, MASS, doParallel, testthat
covr, ggplot2, knitr, logisticPCA, markdown, Matrix,
testthat,
FactoMineR, knitr, testthat, covr, rmarkdown
MASS, aod, lme4, pscl, leaps, survival, nnet
bookdown, officedown, testthat, rmarkdown, officer, htmltools
bookdown, officedown, testthat, rmarkdown, officer,
htmltools, covr
cluster, grDevices, htmlwidgets, jsonlite, mapedit, plotly,
RColorBrewer, s2, scales, vegan, viridisLite, xml2
knitr, rmarkdown, viridisLite, magick, qs
testthat, covr, magrittr, crayon, knitr, rmarkdown, DBI,
RSQLite, R.utils, forcats, microbenchmark, rprintf, stringr,
ggplot2
testthat, covr, magrittr, crayon, knitr, rmarkdown, DBI,
RSQLite, R.utils, forcats, microbenchmark, rprintf, stringr,
ggplot2, dplyr, withr
testthat, covr, magrittr, crayon, knitr, rmarkdown, DBI,
RSQLite, R.utils, forcats, microbenchmark, rprintf, stringr,
ggplot2, dplyr, withr, vctrs (>= 0.2.2)
testthat, covr, magrittr, crayon, knitr, rmarkdown, DBI,
RSQLite, R.utils, forcats, microbenchmark, rprintf, stringr,
ggplot2, dplyr, withr, vctrs (>= 0.3.0)
covr, crayon, DBI, dplyr, forcats, ggplot2, knitr, magrittr,
microbenchmark, R.utils, rmarkdown, rprintf, RSQLite, stringr,
testthat, vctrs (>= 0.3.0), waldo, withr
covr, crayon, DBI, dplyr, forcats, ggplot2, knitr, magrittr,
microbenchmark, R.utils, rmarkdown, rprintf, RSQLite, stringr,
testthat (>= 3.0.0), vctrs (>= 0.3.0), waldo (>= 0.3.0), withr
FNN, JADE, jointDiag, DescTools, knitr, rmarkdown (>= 2.3),
magrittr, readxl
FNN, JADE, jointDiag, DescTools, knitr, rmarkdown (>= 2.3),
magrittr, readxl, RandomFields
covr, knitr, methods, sodium, rmarkdown, testthat, xml2
covr, knitr, methods, rmarkdown, sodium, testthat
mvtnorm, car, fBasics, MASS, timeDate, timeSeries
mvtnorm, car, fBasics, MASS, timeDate, timeSeries, gmmExtra
mvtnorm, car, stabledist, MASS, timeDate, timeSeries
knitr, mvtnorm, car, stabledist, MASS, timeDate, timeSeries
gplots, gtools, Matrix, nlme, lme4 (>= 0.999999-0)
car, caret, e1071, klaR, testthat, mlbench
gtools, qvcalc (>= 0.8-3), relimp, tcltk
copula, qrmtools, qrmdata, latticeExtra, RnavGraphImageData
futile.logger, testthat (>= 0.11), numDeriv
serp, dfidx, mlogit, nnet, ordinal, MASS, testthat, covr
testthat, knitr, devtools, covr, rmarkdown, pixiedust,
igraph, ggraph, migraph, broom, lmtest
testthat, covr, rmarkdown, knitr, pdftools, RISmed
covr, testthat (>= 3.0.0), knitr, rmarkdown
covr, knitr, pkgdown, purrr, rcmdcheck, rmarkdown, withr
covr, devtools, glue, knitr, pkgbuild, pkgdown, purrr,
rcmdcheck, rmarkdown, rsconnect, spelling, stringr, withr
covr, devtools, glue, knitr, pkgdown, purrr, rcmdcheck,
rmarkdown, spelling, stringr, tools, withr, pkgbuild, processx,
rsconnect
attachment, covr, devtools, dockerfiler (>= 0.1.4), knitr,
pkgbuild, pkgdown, processx, purrr, rcmdcheck, rlang,
rmarkdown, rsconnect, spelling, stringr, testthat, tools, withr
rlang, covr, devtools, dockerfiler (>= 0.2.0), knitr,
pkgbuild, pkgdown, processx, purrr, rcmdcheck, rmarkdown,
rsconnect, spelling, stringr, testthat, tools, withr,
attachment (>= 0.2.5)
rlang, covr, devtools, dockerfiler (>= 0.2.0), knitr,
pkgbuild, pkgdown, processx, purrr, rcmdcheck, rmarkdown,
rsconnect, spelling, stringr, testthat, tools, withr,
attachment (>= 0.2.5), renv
knitr, rmarkdown, testthat (>= 1.0.2), miniUI (>= 0.1.1),
shiny (>= 0.13.2), bigQueryR (>= 0.1.0)
knitr, rmarkdown, testthat (>= 1.0.2), miniUI (>= 0.1.1),
covr
knitr, rmarkdown, googleCloudStorageR, miniUI (>= 0.1.1),
covr
bigQueryR (>= 0.3.1), covr, googleCloudStorageR (>= 0.2.0),
knitr, miniUI (>= 0.1.1), rmarkdown, shiny (>= 0.13.2),
testthat (>= 1.0.2)
bigQueryR (>= 0.3.1), covr, googleCloudStorageR (>= 0.2.0),
httptest, knitr, miniUI (>= 0.1.1), rmarkdown, shiny (>=
0.13.2)
bigQueryR (>= 0.3.1), covr, formatR, ganalytics,
googleCloudStorageR (>= 0.2.0), htmlwidgets, httptest (>=
3.2.2), knitr, miniUI (>= 0.1.1), rmarkdown, shiny (>= 0.13.2)
bigQueryR (>= 0.3.1), covr, formatR, ganalytics,
googleCloudStorageR (>= 0.2.0), htmlwidgets, knitr, miniUI (>=
0.1.1), rmarkdown, shiny (>= 0.13.2), testthat
bigQueryR (>= 0.3.1), covr, formatR, ganalytics,
googleCloudStorageR (>= 0.2.0), htmlwidgets, knitr, lifecycle
(>= 1.0.0), miniUI (>= 0.1.1), rmarkdown, shiny (>= 1.6.0),
testthat
roxygen2 (>= 5.0.0), covr, rmarkdown, knitr
covr, devtools (>= 1.12.0), formatR (>= 1.4), httptest,
knitr, miniUI (>= 0.1.1), rmarkdown, roxygen2 (>= 5.0.0), shiny
(>= 0.13.2), testthat
bigQueryR, covr, devtools (>= 1.12.0), formatR (>= 1.4),
googleAnalyticsR, httptest, knitr, miniUI (>= 0.1.1),
rmarkdown, roxygen2 (>= 5.0.0), shiny (>= 0.13.2), testthat
bigQueryR, covr, devtools (>= 1.12.0), formatR (>= 1.4),
googleAnalyticsR, httptest, knitr, miniUI (>= 0.1.1),
rmarkdown, roxygen2 (>= 5.0.0), shiny (>= 0.13.2), testthat,
usethis (>= 1.5.1)
bigQueryR, covr, devtools (>= 1.12.0), formatR (>= 1.4),
googleAnalyticsR, knitr, miniUI (>= 0.1.1), rmarkdown, roxygen2
(>= 5.0.0), shiny (>= 0.13.2), testthat, usethis (>= 1.5.1)
bigQueryR, covr, devtools (>= 1.12.0), formatR (>= 1.4),
googleAnalyticsR, knitr, miniUI (>= 0.1.1), rmarkdown, roxygen2
(>= 5.0.0), rstudioapi, shiny (>= 0.13.2), testthat, usethis
(>= 1.6.0)
knitr, miniUI, plumber, rmarkdown, shiny, testthat (>= 2.1.0)
knitr, miniUI, plumber, rmarkdown, rstudioapi, shiny,
testthat (>= 2.1.0)
knitr, miniUI, rmarkdown, rstudioapi, shiny, testthat (>=
2.1.0)
knitr, markdown, miniUI, rmarkdown, rstudioapi, shiny,
targets, testthat (>= 2.1.0)
covr, readr, curl, knitr, rmarkdown, testthat, openssl
covr, googleComputeEngineR, knitr, readr, rmarkdown, testthat
covr, fs, gargle, googleComputeEngineR, knitr, readr, rlang,
rmarkdown, sodium, testthat
cli, fs, googleComputeEngineR, knitr, readr, rmarkdown,
sodium, testthat, usethis
fs, googleComputeEngineR, knitr, readr, rmarkdown, sodium,
testthat, usethis
knitr, rmarkdown, testthat, mockery, covr
devtools (>= 1.12.0), knitr, covr, rmarkdown, testthat
covr, devtools (>= 1.12.0), googleCloudStorageR, knitr,
rmarkdown, testthat
covr, googleCloudStorageR, knitr, rmarkdown, testthat
knitr, rmarkdown, pkgdown, testthat (>= 3.0.0)
cld2, httptest, knitr, rmarkdown, rvest, stringdist, tidyr,
xml2
cld2, httptest (>= 3.1.0), knitr, rmarkdown, rvest,
stringdist, shiny, shinyjs, tidyr, tuneR, xml2
cld2, testthat, knitr, rmarkdown, rvest, shiny, shinyjs,
stringdist, tidyr, tuneR, xml2
covr, knitr, rmarkdown, sf, sfheaders, testthat
testthat (>= 3.0.0), jsonlite, base64enc, knitr, rmarkdown,
shiny, future, promises
shiny (>= 0.4.0), httpuv (>= 1.2.0), knitr (>= 1.5), wbstats,
data.table
shiny (>= 0.4.0), httpuv (>= 1.2.0), knitr (>= 1.5),
rmarkdown, markdown, data.table
shiny (>= 0.4.0), httpuv (>= 1.2.0), knitr (>= 1.5),
knitcitations, rmarkdown, markdown, data.table
covr, dplyr, knitr, pingr, rmarkdown, rprojroot, testthat
covr, dplyr, knitr, rmarkdown, roxygen2, sodium, testthat (>=
2.1.1)
covr, dplyr, knitr, rmarkdown, roxygen2, sodium, spelling,
testthat (>= 2.1.1)
covr, curl, downlit, dplyr (>= 1.0.0), knitr, mockr,
rmarkdown, roxygen2, sodium, spelling, testthat (>= 3.0.0)
covr, ggplot2, knitr, testthat, rmarkdown
covr, ggplot2, knitr, testthat, rmarkdown, rprojroot
covr, ggplot2, knitr, rmarkdown, rprojroot, testthat (>=
1.0.0)
covr, rmarkdown, sodium, spelling, testthat (>= 2.1.0)
covr, readr, rmarkdown, sodium, spelling, testthat (>=
2.1.0), withr
covr, readr, rmarkdown, sodium, spelling, testthat (>=
3.0.0), withr
covr, readr, rmarkdown, sodium, spelling, testthat (>=
3.1.3), withr
gnm, knitr, psychotree, rmarkdown, testthat
climatrends, ClimMobTools, chirps, knitr, psychotree,
nasapower, rmarkdown
climatrends, ClimMobTools, chirps, gnm, knitr, psychotree,
nasapower, rmarkdown
reticulate, testthat (>= 2.1.0), crosstalk
dplyr, knitr, rlang, rmarkdown, pbkrtest, testthat (>= 3.0.0)
testthat, spelling, knitr, rmarkdown, covr, ggplot2,
landscapetools
dplyr (>= 0.8-0), testthat, spelling, knitr, rmarkdown, covr,
ggplot2, landscapetools, rgdal
dplyr (>= 0.8-0), testthat, knitr, rmarkdown, covr, ggplot2,
landscapetools, rgdal
cowplot, ggthemes, hunspell, knitr, parallel, rgeos,
rmarkdown, spelling, testthat
cowplot, ggthemes, knitr, parallel, rgeos, rmarkdown,
spelling, testthat
covr, cowplot, ggthemes, knitr, parallel, rgeos, rmarkdown,
spelling, testthat
knitr, rmarkdown, circlize, Seurat, ComplexHeatmap, ggrepel,
RCurl, DESeq2, clusterProfiler, msigdbr, fgsea, rclipboard,
cubature, lamW, DT, RColorBrewer, eulerr, gsl, htmltools,
labeling, matrixStats, monocle, VGAM, quantreg, rlang,
graphics, scales, shiny
SparseM (>= 0.36), XML, RBGL, RUnit, cluster
pcalg, GeneNet, glasso, ALL, genefilter, hgu95av2.db
testthat (>= 0.9.1), knitr, rmarkdown, gridExtra, magrittr
DEGraph (>= 1.4), hgu133plus2.db, RCytoscape (>= 1.2), SPIA
(>= 2.2), topologyGSA (>= 1.0)
testthat, ggraph, ggplot2, knitr, rmarkdown
oaqc, testthat, ggraph, ggplot2, knitr, rmarkdown
oaqc, testthat, ggraph, ggplot2, knitr, rmarkdown, uwot
knitr, rmarkdown, animation, testthat, gplots, scales,
devtools, vdiffr
devtools, knitr (>= 1.5), markdown, prettydoc, rmarkdown,
testthat, scales, vdiffr
devtools, knitr (>= 1.5), markdown, prettydoc, R.rsp,
rmarkdown, testthat, scales, vdiffr
testthat (>= 3.0.0), covr, scales, ggplot2, knitr, rmarkdown,
outbreaks, dplyr
knitr, ggplot2, scales, testthat (>= 3.0.0), rmarkdown,
dplyr, outbreaks
gamm4, testthat, vdiffr, MASS, scam, datasets
gamm4, lme4, testthat, vdiffr, MASS, scam, datasets, withr,
knitr, rmarkdown
devtools, knitr, maptools, oce, rgdal, rworldmap, testthat
devtools, knitr, maptools, oce, rgdal, rworldmap, sf, spex,
testthat (>= 2.1.0), rmarkdown, covr
fGarch, knitr, rmarkdown, rlang, shinydashboard
feasts, fGarch, knitr, rmarkdown, rlang, shinydashboard
testthat, taxstats, rmarkdown, dtplyr, ggplot2, scales,
broom, knitr, survey, viridis, ggrepel
testthat, taxstats, dplyr, rmarkdown, dtplyr, ggplot2,
scales, broom, knitr, survey, viridis, ggrepel
broom, dplyr, dtplyr, ggplot2, ggrepel, mgcv, knitr,
rmarkdown, scales, survey, testthat, taxstats (>= 0.0.5),
viridis, yaml
broom, dplyr, dtplyr, ggplot2, ggrepel, knitr, lattice, mgcv,
rmarkdown, scales, survey, testthat, taxstats, viridis, yaml
dplyr, dtplyr, ggplot2, ggrepel, knitr, lattice, mgcv,
rmarkdown, scales, survey, testthat, taxstats, viridis, yaml
dplyr, dtplyr, fst (>= 0.8.4), ggplot2, ggrepel, knitr,
lattice, mgcv, rmarkdown, scales, survey, testthat, taxstats,
viridis, yaml
dplyr, dtplyr, fst (>= 0.8.4), ggplot2, ggrepel, knitr,
lattice, mgcv, rlang, rmarkdown, scales, survey, taxstats,
taxstats1516, testthat, tibble, viridis, yaml, covr
dplyr, dtplyr, fst (>= 0.8.4), future, future.apply, ggplot2,
ggrepel, knitr, lattice, mgcv, rlang, rmarkdown, scales,
survey, taxstats, taxstats1516, testthat, tibble, viridis,
yaml, withr, covr
curl, dplyr, dtplyr, fst (>= 0.8.4), future, future.apply,
ggplot2, ggrepel, knitr, lattice, mgcv, rlang, rmarkdown,
scales, survey, taxstats, taxstats1516, testthat, tibble,
viridis, yaml, withr, covr
curl, dplyr, dtplyr, fst (>= 0.8.4), future, future.apply,
ggplot2, ggrepel, hutilscpp, knitr, lattice, mgcv, rlang,
rmarkdown, rsdmx, scales, survey, taxstats, taxstats1516,
testthat, tibble, viridis, yaml, withr, covr
curl, dplyr, dtplyr, fst (>= 0.8.4), future, future.apply,
ggplot2, ggrepel, knitr, lattice, mgcv, rlang, rmarkdown,
rsdmx, scales, survey, taxstats, taxstats1516, testthat,
tibble, viridis, yaml, withr, covr
curl, fst (>= 0.8.4), knitr, rlang, rmarkdown, rsdmx, scales,
survey, taxstats, taxstats1516, testthat, tibble, yaml, withr,
covr
tsibbledata (>= 0.1.0), purrr (>= 0.3.2), testthat (>=
2.1.0), covr, knitr, shinythemes, shinyalert, rmarkdown, readr
knitr, tsibbledata (>= 0.1.0), purrr (>= 0.3.2), testthat (>=
2.1.0), covr, rmarkdown, readr
testthat, knitr, rmarkdown, igraph, dplyr, tibble, tidyr,
spelling
testthat, MASS, mclust, knitr, rmarkdown, igraph, dplyr,
tibble, tidyr, spelling
testthat, MASS, knitr, rmarkdown, spelling, igraph,
tidygraph, ggraph
clisymbols, swirlify, swirl, testthat (>= 2.1.0)
knitr, rmarkdown, DiagrammeR, bayesplot, lattice, testthat,
mvtnorm, MCMCpack, rmutil, extraDistr, truncdist
knitr, rmarkdown, DiagrammeR, bayesplot, lattice, testthat,
mvtnorm, MCMCpack, rmutil, extraDistr, truncdist, tidyverse,
fields, MASS, abind
knitr, rmarkdown, DiagrammeR, bayesplot, lattice, testthat,
mvtnorm, MCMCpack, rmutil, extraDistr, truncdist, tidyverse,
fields, MASS, abind, spelling
bayesplot, covr, cramer, DiagrammeR, extraDistr, fields,
ggplot2, knitr, lattice, MASS, MCMCpack, mockery, mvtnorm,
rmarkdown, rmutil, spelling, testthat (>= 3.1.0), tidyverse,
truncdist, withr
covr, knitr, rmarkdown, spelling, testthat (>= 3.1.0),
deSolve, abind
covr, knitr, rmarkdown, spelling, testthat (>= 3.1.0)
smooth, numDeriv, testthat, rmarkdown, knitr
smooth, doMC, doParallel, foreach, numDeriv, testthat,
rmarkdown, knitr
smooth, doMC, doParallel, foreach, truncreg, testthat,
rmarkdown, knitr
smooth, doMC, doParallel, foreach, testthat, rmarkdown, knitr
smooth (>= 2.5.1), doMC, doParallel, foreach, testthat,
rmarkdown, knitr
smooth (>= 3.0.0), doMC, doParallel, foreach, testthat,
rmarkdown, knitr
smooth (>= 3.0.0), doMC, doParallel, foreach, testthat,
rmarkdown, forecast, knitr
smooth (>= 3.1.0), doMC, doParallel, foreach, testthat,
rmarkdown, knitr
DiagrammeR, MASS, survival (>= 3.2-8), testthat
DiagrammeR, MASS, survival (>= 3.2-8), testthat (>= 3.0.4)
DiagrammeR, MASS, rdd, survival (>= 3.2-8), testthat (>=
3.0.4)
pixmap, EBImage, lattice, RGraphics, ggplot2
RGraphics, pixmap, EBImage, ggplot2, lattice
ambient, knitr, rmarkdown, testthat, vdiffr
ambient, knitr, ragg, rmarkdown, testthat, vdiffr
ambient, knitr, magick, ragg, rmarkdown, testthat, vdiffr
ambient, knitr, magick, ragg (>= 1.2.0), rmarkdown, svglite
(>= 2.1.0), testthat, vdiffr
spelling, knitr, testthat (>= 2.1.0), rmarkdown
covr, testthat (>= 2.1.0), knitr, rmarkdown
ggplot2, knitr, rmarkdown, tidyr, broom, testthat, lmerTest,
hydroGOF
ggplot2, knitr, rmarkdown, tidyr, broom, testthat, lmerTest,
hydroGOF, covr
broom, covr, ggplot2, hydroGOF, knitr, lmerTest, rmarkdown,
testthat, tidyr, xpectr (>= 0.1.1)
broom, covr, ggplot2, hydroGOF, knitr, lmerTest, rmarkdown,
testthat, tidyr, xpectr (>= 0.3.0)
broom, covr, ggplot2, hydroGOF, knitr, lmerTest, rmarkdown,
testthat, tidyr, xpectr (>= 0.4.0)
broom, covr, ggplot2, hydroGOF, knitr, lmerTest, rmarkdown,
testthat, xpectr (>= 0.4.0)
broom, covr, ggplot2, hydroGOF, knitr, lmerTest, rmarkdown,
testthat, xpectr (>= 0.4.1)
broom, covr, ggplot2, knitr, lmerTest, rmarkdown, testthat,
xpectr (>= 0.4.1)
gapminder, ggplot2 (>= 2.2.1), covr (>= 3.0.1), ggstatsplot
(>= 0.0.4), knitr (>= 1.20), rmarkdown (>= 1.9), spelling
gapminder, ggplot2 (>= 2.2.1), covr (>= 3.0.1), knitr (>=
1.20), rmarkdown (>= 1.9), spelling
gapminder, covr (>= 3.0.1), ggplot2, knitr (>= 1.20),
rmarkdown (>= 1.9), spelling, testthat
gapminder, covr, ggplot2, knitr, rmarkdown, spelling,
testthat
covr, ez, gapminder, ggplot2, knitr, rmarkdown, spelling,
testthat
covr, ez, forcats, gapminder, ggplot2, knitr, rmarkdown,
spelling, testthat
ez, gapminder, ggplot2, knitr, rmarkdown, spelling, testthat
gapminder, ggplot2, knitr, rmarkdown, spelling
testthat, knitr, rmarkdown, pander, isotone
testthat, knitr, rmarkdown, pander, isotone, SLOPE
knitr, rmarkdown, splines, survival, tinytest
ggridges, ggHoriPlot, ggthemes, ncdf4, sf, testthat, stringi
knitr, scales, rmarkdown, gt, testthat, covr, gridExtra,
tidyr
knitr, scales, rmarkdown, gt, testthat, covr, gridExtra,
tibble, utils, mvtnorm
knitr, scales, rmarkdown, gt, testthat, covr, gridExtra,
tibble, utils, mvtnorm, gMCP, kableExtra, ragg
covr, gridExtra, gt, kableExtra, knitr, mvtnorm, ragg,
rmarkdown, scales, testthat, tibble, utils
knitr, rmarkdown, igraph, missSBM, RColorBrewer, Matrix
knitr, rmarkdown, igraph, missSBM, RColorBrewer, combinat,
testthat
testthat, knitr, rmarkdown, dplyr, gsDesign, mvtnorm
testthat, MASS, knitr, rmarkdown, dplyr, gsDesign, mvtnorm
knitr, rmarkdown, testthat, ggplot2, gridExtra,
microbenchmark, imager
knitr, rmarkdown, testthat, ggplot2, gridExtra,
microbenchmark, imager, covr
testthat, DNAcopy, knitr, rmarkdown, Ckmeans.1d.dp,
brassicaData, mixtools, dbscan, openxlsx, devtools, graphics,
KernSmooth
testthat, knitr, rmarkdown, brassicaData, mixtools, devtools,
KernSmooth
rgdal (>= 0.5.2), fields, mapdata, lattice
rgdal (>= 0.5.2), fields, mapdata, lattice, spacetime,
maptools
rgdal (>= 0.5.2), fields, mapdata, lattice, maptools
rgdal (>= 0.5.2), rgeos, fields, mapdata, lattice, maptools
rgdal (>= 0.5.2), rgeos, fields, mapdata, maptools, xts
rgdal (>= 0.5.2), rgeos, fields, maps, mapdata, maptools, xts
fields, maps, mapdata, maptools, rgdal (>= 0.5.2), rgeos, sf
(>= 0.7-2), stars (>= 0.3-0), xts, raster
fields, maps, mapdata, maptools, rgdal (>= 0.5.2), rgeos, sf
(>= 0.7-2), stars (>= 0.3-0), xts, raster, future, future.apply
fields, maps, mapdata, maptools, rgdal (>= 0.5.2), rgeos,
xts, raster, future, future.apply
boot, chron, doBy, grid, lattice, quantreg, reshape, zoo
boot, chron, doBy, grid, lattice, quantreg, reshape, tcltk,
zoo
boot, chron, doBy, grid, lattice, quantreg, reshape2, tcltk,
zoo
boot, chron, doBy, grid, lattice, quantreg, reshape, svUnit,
tcltk, zoo
boot, chron, doBy, grid, lattice, quantreg, reshape, svUnit,
tcltk, Zelig, zoo
boot, chron, grid, lattice, quantreg, svUnit, tcltk, zoo
knitr, paletteer, testthat (>= 2.1.0), RColorBrewer,
rmarkdown, rvest, shiny, tidyr, webshot, xml2
covr, knitr, paletteer, testthat (>= 2.1.0), RColorBrewer,
rmarkdown, rvest, shiny, tidyr, webshot, xml2
covr, knitr, paletteer, testthat (>= 2.1.0), RColorBrewer,
lubridate, rmarkdown, rvest, shiny, tidyr, webshot, xml2
covr, digest (>= 0.6.29), knitr, paletteer, testthat (>=
3.0.0), RColorBrewer, lubridate, rmarkdown, rvest, shiny,
tidyr, webshot2, xml2
covr, testthat, knitr, rmarkdown, ggplot2, profvis
gtfstools, ggplot2, knitr, lwgeom, progressr, rmarkdown,
testthat (>= 2.1.0)
rmarkdown, knitr, testthat, dplyr, bit64
rmarkdown, markdown, knitr, testthat, dplyr, bit64
magrittr, rmarkdown, markdown, knitr, testthat, dplyr, bit64
alphahull, geodist, here, hms, lubridate, lwgeom, knitr,
mapview, rmarkdown, sf, testthat
alphahull, digest, dodgr, geodist, here, hms, knitr, leafem,
lubridate, lwgeom, mapview, pbapply, rmarkdown, sf, testthat
alphahull, digest, dodgr, here, hms, knitr, leafem,
lubridate, lwgeom, mapview, markdown, pbapply, rmarkdown, sf,
testthat
covr, knitr, lwgeom, rmarkdown, testthat
covr, ggplot2, knitr, lwgeom, rmarkdown, testthat, zip
covr, ggplot2, knitr, rmarkdown, testthat, zip
covr, ggplot2, jsonlite, knitr, rmarkdown, testthat,
car, gplots, knitr, rstudioapi, SGP, taxize
car, covr, geepack, gt, Hmisc, lme4, pkgdown, rmarkdown,
spelling, testthat
car, covr, flextable, geepack, Hmisc, kableExtra, lme4,
pkgdown, rmarkdown, scales, spelling, testthat
car, covr, flextable, geepack, Hmisc, kableExtra, lme4,
officer, pkgdown, rmarkdown, scales, spelling, testthat
car, covr, flextable (>= 0.5.10), geepack, Hmisc, huxtable
(>= 5.0.0), kableExtra, lme4, officer, pkgdown, rmarkdown,
scales, spelling, survey, survival, testthat
car, covr, effectsize, flextable (>= 0.5.10), geepack, Hmisc,
huxtable (>= 5.0.0), kableExtra, lme4, officer, parameters,
pkgdown, rmarkdown, scales, spelling, survey, survival,
testthat
broom.mixed (>= 0.2.6), car, covr, effectsize, flextable (>=
0.5.10), geepack, Hmisc, huxtable (>= 5.0.0), kableExtra, lme4,
mice, nnet, officer, parameters, pkgdown, rmarkdown, scales,
spelling (>= 2.2), survey, testthat
broom.mixed (>= 0.2.6), car, covr, effectsize, flextable (>=
0.5.10), geepack, GGally (>= 2.1.0), Hmisc, huxtable (>=
5.0.0), kableExtra, lme4, mgcv, mice, nnet, officer,
parameters, pkgdown, rmarkdown, scales, spelling (>= 2.2),
survey, testthat
broom.mixed (>= 0.2.6), car, covr, effectsize, flextable (>=
0.5.10), geepack, GGally (>= 2.1.0), Hmisc, huxtable (>=
5.0.0), kableExtra, lme4, mgcv, mice, nnet, officer,
parameters, parsnip, rmarkdown, scales, spelling (>= 2.2),
survey, testthat, workflows
broom.mixed (>= 0.2.7), car, covr, effectsize, flextable (>=
0.5.10), geepack, GGally (>= 2.1.0), Hmisc, huxtable (>=
5.0.0), kableExtra, lme4, mgcv, mice, nnet, officer,
parameters, parsnip, rmarkdown, scales, spelling (>= 2.2),
survey, testthat, workflows
broom.mixed (>= 0.2.7), car (>= 3.0-11), covr, effectsize (>=
0.4.0), flextable (>= 0.5.10), geepack, GGally (>= 2.1.0),
Hmisc, huxtable (>= 5.0.0), insight (>= 0.14.4), kableExtra,
lme4, mgcv, mice (>= 3.10.0), nnet, officer, parameters (>=
0.6.0), parsnip (>= 0.1.7), rmarkdown, scales, smd (>= 0.6.6),
spelling (>= 2.2), survey, survival (>= 3.2-11), testthat (>=
3.0.4), workflows (>= 0.2.3)
aod (>= 1.3.1), broom.mixed (>= 0.2.7), car (>= 3.0-11),
cmprsk, covr, effectsize (>= 0.6.0), emmeans (>= 1.7.3),
flextable (>= 0.6.10), geepack, GGally (>= 2.1.0), Hmisc,
huxtable (>= 5.4.0), insight (>= 0.15.0), kableExtra (>=
1.3.4), lme4, mgcv, mice (>= 3.10.0), nnet, officer, openxlsx,
parameters (>= 0.18.1), parsnip (>= 0.1.7), rmarkdown, sandwich
(>= 3.0.1), scales, smd (>= 0.6.6), spelling (>= 2.2), survey,
survival (>= 3.2-11), testthat (>= 3.0.4), tidycmprsk (>=
0.1.2), workflows (>= 0.2.4)
aod (>= 1.3.1), broom.mixed (>= 0.2.7), car (>= 3.0-11),
cmprsk, covr, effectsize (>= 0.6.0), emmeans (>= 1.7.3),
flextable (>= 0.8.1), geepack, GGally (>= 2.1.0), Hmisc,
huxtable (>= 5.4.0), insight (>= 0.15.0), kableExtra (>=
1.3.4), lme4, mgcv, mice (>= 3.10.0), nnet, officer, openxlsx,
parameters (>= 0.18.1), parsnip (>= 0.1.7), rmarkdown, sandwich
(>= 3.0.1), scales, smd (>= 0.6.6), spelling (>= 2.2), survey,
survival (>= 3.2-11), testthat (>= 3.0.4), tidycmprsk (>=
0.1.2), workflows (>= 0.2.4)
testthat, knitr, rmarkdown, lubridate, ggplot2, covr, scales
testthat, knitr, rmarkdown, lubridate, ggplot2, covr, scales,
readr
testthat, sampling, magrittr, tibble, dplyr, data.table
testthat, covr, sampling, magrittr, tibble, dplyr, data.table
knitr, rmarkdown, testthat, tidytext, ggplot2, tidyr
knitr, rmarkdown, testthat, tidytext, ggplot2, tidyr, curl
httptest, spelling, covr, knitr, rmarkdown
testthat (>= 2.1.0), MASS, covr, knitr, rmarkdown
testthat (>= 2.1.0), MASS, covr, knitr, rmarkdown, qqman
testthat (>= 2.1.0), MASS, covr, knitr, rmarkdown, curl
testthat (>= 2.1.0), MASS, covr, knitr, rmarkdown, digest,
curl
rmarkdown, knitr, trekcolors, uniformly, arrangements
arrangements, knitr, rmarkdown, trekcolors, uniformly
devtools, roxygen2, testthat, ggplot2, mlbench
ggplot2, mlbench, Matrix, data.table (>= 1.9.8)
ggplot2, mlbench, Matrix, slam, bit64 (>= 0.9.7), data.table
(>= 1.9.8)
ggplot2, mlbench, Matrix, slam, bit64 (>= 0.9.7), data.table
(>= 1.9.8), survival
ggplot2, mlbench, Matrix, slam, bit64 (>= 0.9.7), data.table
(>= 1.9.8), rgl (>= 0.100.19), plot3Drgl (>= 1.0.1), survival
ggplot2 (>= 3.3.0), mlbench, Matrix, slam, bit64 (>= 0.9.7),
data.table (>= 1.9.8), rgl (>= 0.100.19), plot3Drgl (>= 1.0.1),
survival, DT, IRdisplay, htmltools, plotly, repr
ggplot2 (>= 3.3.0), mlbench, Matrix, slam, bit64 (>= 0.9.7),
data.table (>= 1.9.8), rgl (>= 0.100.19), plot3Drgl (>= 1.0.1),
survival, DT, IRdisplay, htmltools, plotly, repr, curl
covr, dplyr, ggplot2, knitr, rmarkdown, testthat
testthat, roxygen2, highlight, zoo, microbenchmark
testthat, roxygen2, zoo, microbenchmark, knitr, rmarkdown
knitr, rmarkdown, testthat (>= 3.1.0), spelling
testthat, knitr, rmarkdown, gapminder, DiagrammeR
testthat, knitr, rmarkdown, gapminder, DiagrammeR, rstudioapi
testthat, knitr, rmarkdown, webshot, gapminder, DiagrammeR,
rstudioapi
covr, testthat (>= 2.1.0), httptest, knitr, rmarkdown,
spelling
dplyr, minpack.lm, parallel, rhdf5, knitr, testthat, tictoc,
tikzDevice, hash, numDeriv, staplr, markdown, rmarkdown, errors
minpack.lm, parallel, rhdf5, knitr, testthat, tictoc,
tikzDevice, hash, numDeriv, staplr, markdown, rmarkdown, errors
covr, knitr, pkgdown, rmarkdown, testthat, vdiffr
ape, covr, dplyr, knitr, rmarkdown, testthat, vegan, vdiffr
ape, dplyr, knitr, rmarkdown, testthat, vegan, vdiffr
testthat, knitr, rmarkdown, microbenchmark, future, ggplot2,
dplyr, tidyr, stringr, survival, data.table, SuperLearner
testthat, knitr, rmarkdown, microbenchmark, future, ggplot2,
dplyr, tidyr, stringr, survival, SuperLearner
testthat, knitr, rmarkdown, microbenchmark, future, ggplot2,
dplyr, tidyr, survival, SuperLearner
testthat, knitr, rmarkdown, future, dplyr
testthat, knitr, rmarkdown, stringr, covr, future
lme4, nlme, amap, nbpMatching, lattice, lmerTest
lme4, nlme, amap, nbpMatching, lattice, lmerTest, xtable
lme4, nlme, amap, nbpMatching, lattice, lmerTest, xtable,
Cairo, Matrix, MASS
knitr, rmarkdown, testthat, covr, methods
knitr, rmarkdown, testthat, covr, methods, mnis
covr, knitr, rmarkdown, testthat (>= 3.0.0), tmap, vcr (>=
0.6.0), webmockr
covr, DT, knitr, rmarkdown, testthat (>= 3.0.0), tmap, vcr
(>= 0.6.0), webmockr
covr, DT, httptest2, knitr, rmarkdown, testthat (>= 3.0.0),
tmap
covr, DT, httptest2, knitr, rmarkdown, testthat (>= 3.0.0),
tmap, stars, purrr
covr, httptest2, knitr, rmarkdown, tmap, testthat (>= 3.0.0),
recipes, testthat (>= 2.1.0), covr, knitr, rmarkdown,
usethis, roxygen2, devtools
recipes (>= 0.1.8), testthat (>= 2.1.0), covr, knitr,
rmarkdown, usethis, roxygen2, devtools
covr, crayon, devtools, knitr, modeldata (>= 0.0.2), recipes
(>= 0.1.8), rmarkdown (>= 2.3), roxygen2, testthat (>= 2.1.0),
usethis
covr, crayon, devtools, knitr, Matrix, modeldata (>= 0.0.2),
recipes (>= 0.1.8), rmarkdown (>= 2.3), roxygen2, testthat (>=
2.1.0), usethis
covr, crayon, devtools, knitr, Matrix, modeldata (>= 0.0.2),
recipes (>= 0.1.8), rmarkdown (>= 2.3), roxygen2, testthat (>=
3.0.0), usethis (>= 2.1.5)
SingleCellExperiment, Seurat (>= 4.1.1), testthat, knitr,
rmarkdown
testthat, dostats, doParallel, foreach, lme4
testthat, dostats, doParallel, foreach, lme4, boot
testthat, dostats, doParallel, foreach, MCMCpack, boot
testthat, dostats, doParallel, MCMCpack, knitr, boot, withr
covr, fs, knitr, rmarkdown, testthat, pillar (>= 1.1.1), cli,
crayon
covr, fs, knitr, rmarkdown, testthat, pillar (>= 1.4.0), cli,
crayon
cli, covr, crayon, fs, knitr, pillar (>= 1.4.0), rmarkdown,
testthat (>= 3.0.0)
covr, crayon, fs, knitr, pillar (>= 1.4.0), rmarkdown,
testthat (>= 3.0.0)
mcmcsae, survey, knitr, hypergeo, testthat
knitr, rmarkdown, magrittr, dplyr, shiny, colourpicker
testthat (>= 3.0.0), knitr, rmarkdown, usethis, missForest,
tidyverse
testthat, leaflet, rmarkdown, knitr, pkgdown
testthat, leaflet, rmarkdown, knitr, pkgdown, dplyr
testthat, leaflet, rmarkdown, knitr, dplyr
testthat, knitr, rmarkdown, nycflights13, reshape2,
testthat, knitr, rmarkdown, nycflights13, reshape2, formatR,
knitr, rmarkdown, testthat, flare, igraph, tidyverse, zeallot
knitr, rmarkdown, testthat, flare, igraph, dplyr, tidyr,
zeallot
Rglpk (>= 0.6-1), lpSolveAPI (>= 5.5.2.0-17), knitr,
rmarkdown, testthat, flare, igraph, dplyr, tidyr, zeallot
knitr, rmarkdown, testthat, flare, dplyr, tidyr, covr
knitr, rmarkdown, testthat, dplyr, tidyr, covr
knitr, rmarkdown, doParallel, Hmisc, mice
ggplot2, knitr, nycflights13, rmarkdown, testthat
covr, DBI, dbplyr, lintr, odbc, testthat
knitr, rmarkdown, roxygen2, pacman, healthyR.data
knitr, rmarkdown, roxygen2, pacman, healthyR.data, broom,
tidyquant
knitr, rmarkdown, roxygen2, pacman, healthyR.data, broom,
tidyquant, uwot
knitr, rmarkdown, roxygen2, pacman, healthyR.data, broom,
tidyquant, uwot, cli, crayon, rstudioapi
knitr, rmarkdown, roxygen2, pacman, healthyR.data, broom,
tidyquant, uwot, cli, crayon, rstudioapi, tidyselect
knitr, rmarkdown, roxygen2, pacman, healthyR.data, broom,
tidyquant, uwot, tidyselect
knitr, rmarkdown, roxygen2, pacman, healthyR.data, broom,
uwot, tidyselect
rmarkdown, knitr, roxygen2, stats, tidyquant, cli, crayon,
rstudioapi
rmarkdown, knitr, roxygen2, healthyR.data, scales,
tidyselect, janitor, timetk, plotly, rsample, kknn, hardhat,
uwot, stringr
rmarkdown, knitr, roxygen2, stats, tidyquant, cli, crayon,
rstudioapi, healthyR.data, scales
rmarkdown, knitr, roxygen2, stats, tidyquant, cli, crayon,
rstudioapi, healthyR.data, scales, tidyselect, janitor, timetk
rmarkdown, knitr, roxygen2, tidyquant, healthyR.data, scales,
tidyselect, janitor, timetk, plotly, rsample
rmarkdown, knitr, roxygen2, healthyR.data, scales,
tidyselect, janitor, timetk, plotly, rsample, kknn, hardhat
knitr, rmarkdown, roxygen2, scales, rsample, healthyR.data,
stringr
knitr, rmarkdown, roxygen2, scales, rsample, healthyR.data,
stringr, forecast, tidymodels, tidyverse, cli, crayon, glue,
rstudioapi, xts, zoo
knitr, rmarkdown, roxygen2, scales, rsample, healthyR.data,
stringr, forecast, tidymodels, cli, crayon, glue, rstudioapi,
xts, zoo, TSA, tune, dials, workflows
knitr, rmarkdown, roxygen2, scales, rsample, healthyR.data,
stringr, forecast, tidymodels, cli, crayon, glue, rstudioapi,
xts, zoo, TSA, tune, dials, workflows, tidyselect
knitr, rmarkdown, roxygen2, scales, rsample, healthyR.data,
stringr, forecast, tidymodels, glue, xts, zoo, TSA, tune,
dials, workflows, tidyselect
knitr, rmarkdown, roxygen2, scales, rsample, healthyR.data,
healthyR, stringr, forecast, tidymodels, glue, xts, zoo, TSA,
tune, dials, workflows, tidyselect
knitr, rmarkdown, roxygen2, scales, rsample, healthyR.ai,
stringr, forecast, tidymodels, glue, xts, zoo, TSA, tune,
dials, workflows, tidyselect
knitr, rmarkdown, spelling, testthat (>= 3.0.0), tibble
knitr, covr, tidyselect, rmarkdown, testthat
knitr, covr, gplots, tidyselect, rmarkdown, testthat
knitr, rmarkdown, gplots, htmlwidgets, RColorBrewer
tidyverse, ggpubr, testthat, knitr, rmarkdown
tidyverse, ggpubr, testthat, knitr, rmarkdown, covr, rerddap,
ncdf4, weathercan
tidyverse, ggpubr, testthat, knitr, rmarkdown, covr, rerddap
ggpubr, testthat, knitr, rmarkdown, covr, rerddap
ggpubr, testthat, knitr, rmarkdown, covr, tidync, tidyr,
rerddap
covr, ggpubr, knitr, rerddap, rmarkdown, testthat, tidync,
tidyr
doParallel, covr, ggpubr, knitr, ncdf4, rerddap, rmarkdown,
testthat, tidync, tidyr
covr, here, rmarkdown, roxygen2, testthat (>= 2.1.0), dplyr,
tidyr (>= 1.0.0), nycflights13, ggplot2, knitr, purrr
BCEA, diagram, flexsurv, knitr, logitnorm, lpSolve, mgcv,
optimx, parallel, readxl, rgho, rmarkdown, stringr, survival,
testthat, triangle, XLConnect
BCEA, diagram, flexsurv, knitr, logitnorm, lpSolve, mgcv,
optimx, parallel, readxl, rgho, rmarkdown, stringr, survival,
testthat, triangle, magrittr
BCEA, diagram, flexsurv, knitr, logitnorm, lpSolve, mgcv,
optimx, parallel, readxl, rgho, rmarkdown, stringr, survival,
testthat, triangle, magrittr, cli
knitr, formatR, readxl, rmarkdown, testthat
knitr, parallel, formatR, readxl, rmarkdown, testthat
knitr, parallel, formatR, mgcv, readxl, rmarkdown, testthat
diagram, flexsurv, Hmisc, knitr, logitnorm, parallel,
formatR, mgcv, readxl, rmarkdown, survival, testthat, triangle
diagram, flexsurv, formatR, Hmisc, knitr, logitnorm, mgcv,
optimx, parallel, readxl, rmarkdown, survival, testthat,
triangle
diagram, flexsurv, Hmisc, knitr, logitnorm, mgcv, optimx,
parallel, readxl, rgho, rmarkdown, survival, testthat, triangle
BCEA, diagram, flexsurv, Hmisc, knitr, logitnorm, lpSolve,
mgcv, optimx, parallel, readxl, rgho, rmarkdown, stringr,
survival, testthat, triangle, XLConnect
knitr, rmarkdown, remotes, ggplot2, covr, testthat (>= 3.0.0)
rgl, candisc, effects, reshape, gplots, nlme, lattice
rgl, candisc, effects, reshape, gplots, nlme, lattice,
reshape2
rgl, candisc, effects, reshape, gplots, nlme, lattice,
reshape2, corrgram, FRB, animation
rgl, candisc, effects, reshape, gplots, nlme, lattice,
reshape2, corrgram, FRB
rgl, candisc, effects, reshape, gplots, nlme, lattice,
reshape2, corrgram, FRB, animation, mvinfluence
rgl, candisc, effects, reshape, gplots, nlme, lattice,
reshape2, corrgram, animation, mvinfluence
rgl, candisc, effects, reshape, gplots, nlme, lattice,
reshape2, corrgram, animation, mvinfluence, knitr, rmarkdown,
dplyr, tidyr, ggplot2, bookdown
conflicted, covr, fs, knitr, palmerpenguins, plyr, readr,
rmarkdown, testthat, uuid, withr
conflicted, covr, fs, knitr, palmerpenguins, plyr, readr,
rlang, rmarkdown, testthat, uuid, withr
testthat, magrittr, knitr, rmarkdown, dplyr, data.table,
ggplot2, DT
testthat, magrittr, knitr, rmarkdown, dplyr, data.table,
ggplot2, DT, mvtnorm, patchwork
autoimage, devtools, fda, igraph, testthat