Depends
R (>= 4.1.0), IRanges (>= 2.17.1), GenomicRanges (>= 1.35.1),
GenomicAlignments (>= 1.19.0)
Imports
AnnotationDbi (>= 1.45.0), Biostrings (>= 2.51.1), biomaRt,
biomartr (>= 1.0.7), BiocFileCache, 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), qs2, R.utils, Rcpp (>= 1.0.0), Rsamtools
(>= 1.35.0), rtracklayer (>= 1.43.0), stats,
SummarizedExperiment (>= 1.14.0), S4Vectors (>= 0.21.3), tools,
txdbmaker, utils, XML, xml2 (>= 1.2.0), withr
Suggests
testthat, rmarkdown, knitr, BiocStyle,
BSgenome.Hsapiens.UCSC.hg19, GenomeInfoDbData