data.table, plyranges, dplyr, GenomicRanges, RaggedExperiment,
MultiAssayExperiment, SummarizedExperiment, stringr, ggbio,
wCorr, magrittr, rlang, AnnotationDbi, BiocGenerics,
GenomeInfoDb, GenomicFeatures, IRanges, OrganismDbi, S4Vectors,
assertthat, biovizBase, ensembldb, ggplot2, ggrepel,
matrixStats, methods, qvalue, scales, tidyr, ggridges
data.table, plyranges (>= 1.14.0), dplyr, GenomicRanges,
RaggedExperiment, MultiAssayExperiment, SummarizedExperiment,
stringr, ggbio, wCorr, magrittr, rlang, AnnotationDbi,
BiocGenerics, GenomeInfoDb, GenomicFeatures, IRanges,
OrganismDbi, S4Vectors, assertthat, biovizBase, ensembldb,
ggplot2, ggrepel, matrixStats, methods, qvalue, scales, tidyr,
ggridges, pbapply, BSgenome, tidyselect, purrr
data.table, plyranges (>= 1.14.0), dplyr, GenomicRanges,
RaggedExperiment, MultiAssayExperiment, SummarizedExperiment,
stringr, ggbio, wCorr, magrittr, rlang, AnnotationDbi,
BiocGenerics, GenomeInfoDb, GenomicFeatures, IRanges,
OrganismDbi, S4Vectors, assertthat, biovizBase, ensembldb,
ggplot2, ggrepel, matrixStats, methods, qvalue, scales, tidyr,
ggridges, pbapply, BSgenome, tidyselect, purrr, lifecycle
data.table, plyranges (>= 1.14.0), dplyr, GenomicRanges,
RaggedExperiment, MultiAssayExperiment, SummarizedExperiment,
stringr, ggbio, wCorr, magrittr, rlang, AnnotationDbi,
BiocGenerics, GenomeInfoDb, GenomicFeatures, IRanges,
OrganismDbi, S4Vectors, assertthat, biovizBase, ensembldb,
ggplot2, ggrepel, matrixStats, methods, qvalue, scales, tidyr,
ggridges, pbapply, BSgenome, tidyselect, lifecycle
data.table, plyranges (>= 1.14.0), dplyr, GenomicRanges,
RaggedExperiment, MultiAssayExperiment, SummarizedExperiment,
stringr, ggbio, wCorr, magrittr, rlang, AnnotationDbi,
BiocGenerics, GenomeInfoDb, GenomicFeatures, IRanges,
S4Vectors, assertthat, ensembldb, ggplot2, ggrepel,
matrixStats, methods, qvalue, scales, tidyr, ggridges, pbapply,
BSgenome, tidyselect, lifecycle
ArchR, RMariaDB, motifmatchr, BiocManager,
TxDb.Hsapiens.UCSC.hg38.refGene, org.Hs.eg.db,
BSgenome.Hsapiens.UCSC.hg19, withr, knitr, rmarkdown, testthat
(>= 3.0.0)
ArchR, RMariaDB, motifmatchr, BiocManager,
TxDb.Hsapiens.UCSC.hg38.refGene, org.Hs.eg.db,
BSgenome.Hsapiens.UCSC.hg19, withr, knitr, rmarkdown, chromVAR,
testthat (>= 3.0.0), uwot, irlba, glmmTMB, Matrix, lmerTest
ArchR, RMariaDB, motifmatchr, BiocManager,
TxDb.Hsapiens.UCSC.hg38.refGene, org.Hs.eg.db,
BSgenome.Hsapiens.UCSC.hg19, withr, knitr, rmarkdown, chromVAR,
testthat (>= 3.0.0), uwot, irlba, glmmTMB, Matrix, purrr,
lmerTest
ArchR, RMariaDB, motifmatchr, BiocManager,
TxDb.Hsapiens.UCSC.hg38.refGene,
TxDb.Hsapiens.UCSC.hg19.knownGene, org.Hs.eg.db,
BSgenome.Hsapiens.UCSC.hg19, withr, knitr, rmarkdown, chromVAR,
testthat (>= 3.0.0), uwot, irlba, glmmTMB, Matrix, waldo,
purrr, lmerTest, Biobase, lme4, zip, rtracklayer, cowplot,
mixtools, zoo