biocPkgList {BiocPkgTools} | R Documentation |
The BiocViews-generated VIEWS
file is available
for Bioconductor release and devel repositories. It
contains quite a bit more information from the
package DESCRIPTION
files than the PACKAGES
file. In particular, it contains biocViews
annotations
and URLs for vignettes and developer URLs.
biocPkgList( version = BiocManager::version(), repo = "BioCsoft", addBiocViewParents = TRUE )
version |
The requested Bioconductor version. Will
default to use the BiocManager defaults (ie., |
repo |
The requested biooconductor repository. The default will be the Bioconductor software repository: BioCsoft. Available repos include: "BioCsoft", "BioCann", "BioCexp", "BioCworkflows", and "CRAN". Note that not all repos are available for all versions, particularly older versions (but who would use those, right?). |
addBiocViewParents |
logical(), whether to add all biocViews parents to biocViews annotations. |
Since packages are annotated with the most specific
views, the default functionality here is to add parent terms
for all views for each package. For example, in the bioCsoft
repository, all packages will have at least "Software" added
to their biocViews. If one wants to stick to only the most
specific terms, set addBiocViewParents
to FALSE
.
An object of class tbl_df
.
bpkgl = biocPkgList() bpkgl unlist(bpkgl[1,'Depends']) # Get a list of all packages that # import "GEOquery" library(dplyr) bpkgl %>% filter(Package=='GEOquery') %>% pull(c('importsMe'))