Open csmoreno opened 3 weeks ago
I was trying to use msigdbr for the C4_3CA collection and I get this error:
Computational_pathwaysDF <- msigdbr("human", category="C4",subcategory = "3CA") Error in msigdbr("human", category = "C4", subcategory = "3CA") : unknown subcategory
When I print out the collections
print(msigdbr_collections(),n=30) I get this ... 12 C3 "TFT:TFT_Legacy" 610 13 C4 "CGN" 427 14 C4 "CM" 431 15 C5 "GO:BP" 7658 ...
I was able to download the C4 3CA collection here: https://www.gsea-msigdb.org/gsea/msigdb/download_file.jsp?filePath=/msigdb/release/2024.1.Hs/c4.3ca.v2024.1.Hs.json but it is in a different format than the dataframe format provided by msigdbr.
Is there a way to import the json file into msigdbr or to convert it into the dataframe format from the list format in the json file?
Thanks
I was trying to use msigdbr for the C4_3CA collection and I get this error:
When I print out the collections
I was able to download the C4 3CA collection here: https://www.gsea-msigdb.org/gsea/msigdb/download_file.jsp?filePath=/msigdb/release/2024.1.Hs/c4.3ca.v2024.1.Hs.json but it is in a different format than the dataframe format provided by msigdbr.
Is there a way to import the json file into msigdbr or to convert it into the dataframe format from the list format in the json file?
Thanks