R (>= 4.1.0), methods, BiocFileCache, utils
R (>= 4.3.0), methods, BiocFileCache, utils
R (>= 2.7.0), methods, AnnotationHub (>= 1.46.0),
AnnotationDbi, BiocStyle
R (>= 4.3.0), AnnotationDbi (>= 1.56.2), methods
AnnotationHub, RSQLite, DBI, BiocGenerics, methods
tools, jsonlite, RCurl, data.table, methods
ape, treeio, tibble, tidyr, dplyr, readr, purrr, igraph,
geneplast, BiocFileCache
AnnotationDbi, AnnotationHub, BiocFileCache, DBI, methods,
utils
DBI, RSQLite, dplyr, dbplyr, igraph, Rdpack, AnnotationHub,
utils
BiocStyle, knitr, AnnotationHub (>= 2.7.13), rmarkdown
BiocStyle, magrittr, dplyr, tibble, knitr, rmarkdown
biomaRt, GO.db, GenomeInfoDb, knitr, testthat, GetoptLong, DT
AnnotationHub, RUnit, BiocGenerics, knitr, curl, httr
BiocStyle, knitr, rmarkdown, testthat, Modstrings,
rtracklayer
BiocStyle, knitr, RefManageR, rmarkdown, ggridges, httr,
readr, pheatmap, GenomeInfoDb, rtracklayer, AnnotationHub
geneplast, BiocGenerics, BiocStyle, knitr, rmarkdown
knitr, rmarkdown, BiocStyle, TFBSTools (>= 1.31.2)
BiocStyle, magrittr, graphite, dplyr, tidyr, tibble,
rappdirs, XML, readxl, stringr, utils, knitr, sets, R.utils,
readr, conflicted, rmarkdown
DBI, RUnit, clusterProfiler, knitr, rmarkdown
annotate, BiocStyle, dplyr, GO.db, KEGGREST, knitr,
rmarkdown, SomaDataIO, testthat (>= 3.0.0), tibble, withr
BiocStyle, knitr, RefManageR, rmarkdown, sessioninfo
rmarkdown, knitr, pander, testthat, devtools, markdown,
ggplot2
TENET, AnnotationHubData, testthat (>= 3.0.0), BiocManager,
knitr, rmarkdown, BiocStyle