GenomeInfoDb, GenomicRanges, IRanges, Matrix, Rsamtools,
S4Vectors, Seurat, data.table, dplyr, future, future.apply,
ggplot2, ggseqlogo, irlba, pbapply, tidyr, zoo, patchwork,
gggenes, grid, stats, utils, BiocGenerics
testthat (>= 2.1.0), chromVAR, SummarizedExperiment,
TFBSTools, motifmatchr, Biostrings, BSgenome

c(
person(given = 'Tim', family = 'Stuart', email = 'tstuart@nygenome.org', role = c('aut', 'cre'), comment = c(ORCID = '0000-0002-3044-0897')),
person(given = 'Avi', family = 'Srivastava', email = 'asrivastava@nygenome.org', role = 'aut', comment = c(ORCID = '0000-0001-9798-2079')),
person(given = 'Paul', family = 'Hoffman', email = 'phoffman@nygenome.org', role = 'ctb', comment = c(ORCID = '0000-0002-7693-8957')),
person(given = 'Rahul', family = 'Satija', email = 'rsatija@nygenome.org', role = 'ctb', comment = c(ORCID = '0000-0001-9448-8833'))
)
GenomeInfoDb, GenomicRanges, IRanges, Matrix, Rsamtools,
S4Vectors, Seurat (>= 3.2.0), data.table, dplyr, future,
future.apply, ggplot2, ggseqlogo, irlba, pbapply, tidyr,
patchwork, grid, stats, utils, Biobase, BiocGenerics,
Biostrings, ggrepel, stringi, ggbio, biovizBase,
AnnotationFilter, fastmatch, lsa, RcppRoll, scales, Rcpp,
qvalue
'RcppExports.R' 'data.R' 'generics.R' 'dimension_reduction.R'
'footprinting.R' 'fragments.R' 'genomeinfodb-methods.R'
'granges-methods.R' 'iranges-methods.R' 'mito.R' 'motifs.R'
'objects.R' 'preprocessing.R' 'utilities.R' 'visualization.R'
testthat (>= 2.1.0), chromVAR, SummarizedExperiment,
TFBSTools, motifmatchr, BSgenome, shiny, miniUI

GenomeInfoDb, GenomicRanges, IRanges, Matrix, Rsamtools,
S4Vectors, Seurat (>= 3.2.0), data.table, dplyr (>= 1.0.0),
future, future.apply, ggplot2, ggseqlogo, irlba, pbapply,
tidyr, patchwork, stats, utils, BiocGenerics, Biostrings,
ggrepel, stringi, ggbio, biovizBase, AnnotationFilter,
fastmatch, lsa, RcppRoll, scales, Rcpp, ggforce
'RcppExports.R' 'data.R' 'generics.R' 'dimension_reduction.R'
'footprinting.R' 'fragments.R' 'genomeinfodb-methods.R'
'granges-methods.R' 'iranges-methods.R' 'links.R' 'mito.R'
'motifs.R' 'objects.R' 'peaks.R' 'preprocessing.R'
'quantification.R' 'utilities.R' 'visualization.R'