Dependency analysis on package biovizBase

General information

Bioconductor link link
Package version1.44.0
Number of strong dependencies141
Number of all dependencies145
Number of parent packages22
Max heaviness from parent packages30
Total heaviness from parent packages35
Number of parent packages (including Suggests and Enhances)28
Max co-heaviness from parent packages ("Hmisc" and "scales")6

Dependency heatmap

In the following dependency heatmap, rows are the parent packages of biovizBase and columns are the dependency packages that each parent package brings in. On the right side of the heatmap, there are three barplot annotations: 1. number of imported functions/S4 methods/S4 classes from parent packages; 2. number of dependency packages from each parent package; 3. heaviness of each parent package on biovizBase.

Adjust heatmap size:
Base packages Other packages Depends Imports Suggests utils stats graphics methods stats4 tools grDevices grid parallel splines BiocGenerics S4Vectors IRanges RCurl GenomeInfoDbData bitops GenomeInfoDb XVector zlibbioc crayon GenomicRanges lattice Matrix Biobase Biostrings MatrixGenerics DelayedArray matrixStats BiocParallel Rhtslib futile.logger snow codetools BH lambda.r futile.options formatR SummarizedExperiment Rsamtools yaml R6 rlang glue BiocIO XML GenomicAlignments restfulr rjson lifecycle png fastmap pkgconfig vctrs jsonlite cli rtracklayer DBI RSQLite KEGGREST bit64 blob memoise Rcpp plogr httr bit cachem curl mime openssl askpass sys digest tibble withr stringr magrittr ellipsis fansi pillar stringi utf8 AnnotationDbi biomaRt progress BiocFileCache rappdirs xml2 hms prettyunits dbplyr dplyr filelock assertthat purrr tidyselect generics GenomicFeatures lazyeval farver labeling munsell RColorBrewer viridisLite colorspace BSgenome AnnotationFilter ProtGenerics survival Formula ggplot2 latticeExtra cluster rpart nnet foreign gtable gridExtra data.table htmlTable viridis htmltools base64enc isoband MASS mgcv scales jpeg knitr checkmate htmlwidgets rstudioapi nlme evaluate highr xfun backports ensembldb 0 2 4 6 8 Imported methods 0 50 100 Required packages 0 10 20 30 Heaviness from parents methods grDevices stats RColorBrewer dichromat rlang BiocGenerics S4Vectors IRanges GenomeInfoDb scales GenomicRanges Biostrings AnnotationFilter SummarizedExperiment Rsamtools GenomicAlignments AnnotationDbi Hmisc GenomicFeatures VariantAnnotation ensembldb RUnit rtracklayer BSgenome BSgenome.Hsapiens.UCSC.hg19 TxDb.Hsapiens.UCSC.hg19.knownGene EnsDb.Hsapiens.v75 In total 141 packages are required directly or indirectly (145) when installing 'biovizBase' (1.44.0) Depends Imports Suggests Base packages that are required Recommended packages that are required Contributed packages that are required Packages that are required for installing 'biovizBase' Imported functions Imported S4 methods Imported S4 classes The whole namespace is imported


Dependency table

"Import" information is from the NAMESPACE file of biovizBase.

imports: number of imported functions/objects; importMethods: number of imported S4 methods; importClasses: number of imported S4 classes.

Required packages: number of strong dependency packages for each of the parent package (or in other words, number of dependency packages the parent package brings in).

Heaviness from parent on biovizBase: number of required packages that can be reduced if moving parent package to Suggests of biovizBase.

Parent package Field imports importMethods importClasses Required packages Heaviness from parent on biovizBase
methods Depends The whole set of functions/methods/classes from parent package is imported to the namespace of biovizBase. 0 0
Hmisc Imports 1 0 0 67 30
VariantAnnotation Imports 0 0 1 98 2
ensembldb Imports 0 3 0 100 2
dichromat Imports 1 0 0 1 1
grDevices Imports 1 0 0 0 0
stats Imports 4 0 0 0 0
RColorBrewer Imports 1 0 0 0 0
rlang Imports 1 0 0 1 0
BiocGenerics Imports The whole set of functions/methods/classes from parent package is imported to the namespace of biovizBase. 4 0
S4Vectors Imports The whole set of functions/methods/classes from parent package is imported to the namespace of biovizBase. 6 0
IRanges Imports The whole set of functions/methods/classes from parent package is imported to the namespace of biovizBase. 7 0
GenomeInfoDb Imports The whole set of functions/methods/classes from parent package is imported to the namespace of biovizBase. 11 0
scales Imports 4 0 0 15 0
GenomicRanges Imports The whole set of functions/methods/classes from parent package is imported to the namespace of biovizBase. 15 0
Biostrings Imports 5 3 0 17 0
AnnotationFilter Imports 5 0 3 17 0
SummarizedExperiment Imports The whole set of functions/methods/classes from parent package is imported to the namespace of biovizBase. 24 0
Rsamtools Imports 4 3 1 29 0
GenomicAlignments Imports 2 0 1 38 0
AnnotationDbi Imports 5 0 0 44 0
GenomicFeatures Imports 0 8 1 96 0
RUnit Suggests No object is imported into the namespace of biovizBase. 3 1
BSgenome.Hsapiens.UCSC.hg19 Suggests No object is imported into the namespace of biovizBase. 46 1
TxDb.Hsapiens.UCSC.hg19.knownGene Suggests No object is imported into the namespace of biovizBase. 97 1
EnsDb.Hsapiens.v75 Suggests No object is imported into the namespace of biovizBase. 101 1
rtracklayer Suggests No object is imported into the namespace of biovizBase. 44 0
BSgenome Suggests No object is imported into the namespace of biovizBase. 45 0

Analysis was done with pkgndep.