I have two lists of genes (
genes of interest &
background genes). I want to check if
genes of interest are "enriched" for any disease or cellular pathway. My gene list was formed intersecting specific genome intervals with gencode.gtf (genes are in Ensembl ID).
What I tried:
I searched biostar and tried various suggestions (David, bioconductor packages). However I wasn't able to get David working and some bioconductor packages weren't available for my R version.
What I want:
Can I get suggestions what are you using (tools, R packages) for such analysis in 2014?