Closed rosanababu closed 2 years ago
Hi aertslab,
Could you please help me to clarify a small doubt?
Can I use output from pyscenic grn step (adjacencies.tsv) as input for below steps to convert regulons stored as incidence matrix to gene sets (e.g. list of genes)?
regulons <- importModulesGmt(file.path(pyScenicDir, "adjacencies.tsv")) regulons <- geneIds(regulons) or GRNBoost_linkList <- importArboreto(file.path(pyScenicDir, "adjacencies.tsv")) regulons_genelist <- regulonsToGeneLists(GRNBoost_linkList)
Looking forward for your kind reply
Hi aertslab,
Could you please help me to clarify a small doubt?
Can I use output from pyscenic grn step (adjacencies.tsv) as input for below steps to convert regulons stored as incidence matrix to gene sets (e.g. list of genes)?
regulons <- importModulesGmt(file.path(pyScenicDir, "adjacencies.tsv")) regulons <- geneIds(regulons) or GRNBoost_linkList <- importArboreto(file.path(pyScenicDir, "adjacencies.tsv")) regulons_genelist <- regulonsToGeneLists(GRNBoost_linkList)
Looking forward for your kind reply