For a collaboration project we are required to use R-studio in a remote environment. They have also provided the data from KEGG and Reactome on the same server, which we can access.
I'm used to just having my list of genes, and using packages such as enrichR, or string-db. I cant seem to figure out how to do similair enrichment analysis using locally stored pathway data.
The KEGG is stored in a single file:
The REACTOME is stored in a few files:
Does anyone have experience running enrichment analysis using locally stored data? Or can anyone point me to R packages that could handle it?