Comments (2)
We've introduced some changes to how genesets are downloaded to improve reproducibility of workflows in recent versions.
You can't bulk download all msigdb genesets but you can see all the available and download/save the ones you need.
library(hypeR)
hypeR::msigdb_info()
gsets <- msigdb_download(species="Homo sapiens", category="C2", "CP:BIOCARTA")
Please refer to the documentation for more information.
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Thanks a tonne.
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