I want to download all the genes related to each metabolic pathways in KEGG. However, I can only do it in bulk like in the link: http://www.genome.jp/dbget-bin/get_linkdb?-t+genes+path:hsa01100 So I can get the list of all metabolic genes but cannot split them into each sub-pathway. Does anyone know how to do this?
Gene Set Clustering based on Functional annotation (GeneSCF)
Advantages
Real-time analysis, do not have to depend on enrichment tools to get updated.
Easy for computational biologists to integrate this simple tool with their NGS pipeline.
GeneSCF supports more organisms.
Enrichment analysis for Multiple gene list in single run.
Enrichment analysis for Multiple gene list using Multiple source database (GO,KEGG, REACTOME and NCG) in single run.
Download complete GO terms/Pathways/Functions with associated genes as simple table format in a plain text file (Check "Two step process" below in "GeneSCF USAGE" section).
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version 2.3.6
Do you use R? There is a package called KEGG.db in bioconductor.