R (>= 2.7.0), methods, AnnotationDbi (>= 1.53.1)
R (>= 3.5.0), BSgenome (>= 1.54.0),
BSgenome.Hsapiens.UCSC.hg19
R (>= 2.7.0), methods, AnnotationDbi (>= 1.9.7)
R (>= 3.5), Biobase, GenomicRanges, GenomeInfoDbData,
AnnotationHub (>= 2.13.8),
R (>= 2.10), GenomicFeatures (>= 1.7.22),
TxDb.Hsapiens.UCSC.hg18.knownGene, org.Hs.eg.db
R (>= 2.10), GenomicFeatures (>= 1.7.22),
TxDb.Hsapiens.UCSC.hg19.knownGene, org.Hs.eg.db
R (>= 1.6), AnnotationDbi (>= 1.17.11), methods, OrganismDbi
(>= 1.11.39), GenomicFeatures, GO.db, org.Hs.eg.db,
TxDb.Hsapiens.UCSC.hg19.knownGene
R (>= 2.7.0), methods, AnnotationDbi (>= 1.22.5)
R (>= 1.6), AnnotationDbi (>= 1.17.11), methods, OrganismDbi
(>= 1.11.39), GenomicFeatures, GO.db, org.Mm.eg.db,
TxDb.Mmusculus.UCSC.mm10.knownGene
R (>= 2.7.0), methods, AnnotationHub (>= 1.46.0),
AnnotationDbi, BiocStyle
R (>= 1.6), AnnotationDbi (>= 1.17.11), methods, OrganismDbi
(>= 1.11.39), GenomicFeatures, GO.db, org.Rn.eg.db,
TxDb.Rnorvegicus.UCSC.rn5.refGene
R (>= 2.7.0), methods, AnnotationDbi (>= 1.33.0)
VariantAnnotation (>= 1.9.15), RSQLite (>= 0.11.0)
R (>= 2.10), IRanges, GenomicRanges, BSgenome (>= 1.25.6)
R (>= 2.10), S4Vectors, IRanges, GenomeInfoDb, GenomicRanges,
BSgenome (>= 1.33.9)
R (>= 2.10), IRanges, GenomeInfoDb, GenomicRanges, BSgenome
(>= 1.25.6)
R (>= 2.7.0), methods, AnnotationDbi (>= 1.18.3)
R (>= 2.10), S4Vectors, IRanges, GenomeInfoDb, GenomicRanges,
BSgenome (>= 1.35.5)
tools, jsonlite, RCurl, data.table, methods
utils, S4Vectors, IRanges, GenomicRanges, GenomeInfoDb,
BSgenome
GenomicFeatures, GenomeInfoDb, rtracklayer, bumphunter,
derfinder, AnnotationDbi, IRanges, org.Hs.eg.db, utils, methods
methods, utils, stats, GenomeInfoDb, AnnotationHub, digest
utils, S4Vectors, IRanges, GenomicRanges, GenomeInfoDb,
BSgenome, rhdf5, HDF5Array
AnnotationDbi, DBI, RSQLite, methods, gtools
methods, utils, IRanges, GenomicRanges, BSgenome
methods, utils, S4Vectors, IRanges, GenomeInfoDb,
GenomicRanges, BSgenome
methods, utils, IRanges, GenomeInfoDb, GenomicRanges, BSgenome
methods, utils, BiocGenerics, S4Vectors, IRanges,
GenomeInfoDb, GenomicRanges, BSgenome
BiocStyle, knitr, AnnotationHub (>= 2.7.13), rmarkdown
BiocStyle, magrittr, dplyr, tibble, knitr, rmarkdown
AnnotationHub, RUnit, BiocGenerics, knitr, curl, httr
BiocStyle, knitr, rmarkdown, testthat, Modstrings,
rtracklayer
dplyr, knitr, BiocStyle, rmarkdown, jsonlite
knitr, rmarkdown, BiocStyle, knitcitations, sessioninfo,
testthat (>= 2.1.0), glue, derfinderPlot, AnnotationHubData,
RefManageR, GenomicRanges
magrittr, graphite, dplyr, tidyr, tibble, rappdirs, XML,
readxl, stringr, utils, knitr, sets, R.utils, readr,
conflicted, rmarkdown
pd.hg.u95av2, pd.huex.1.0.st.v2, pd.mapping50k.xba240,
pd.hg18.60mer.expr, pd.2006.07.18.hg18.refseq.promoter,
pd.hugene.1.0.st.v1
DBI, RUnit, clusterProfiler, knitr, rmarkdown
Biostrings, BSgenome (>= 1.16.1), BSgenome.Hsapiens.UCSC.hg19
Biostrings, BSgenome.Hsapiens.UCSC.hg19,
BSgenome.Hsapiens.UCSC.hg19.masked (>= 1.3.19)