I am dealing with a transcriptome of a species and list of genes selected for a gene enrichment analysis. In order to see what kind of genes in my selected list are overrepresented compared with the transcriptome, I ran eggnog-mapper annotation.
After running eggnog mapper, I extract the list of GO, KEGG and COG terms associated.
From there, I would like to do a Fisher-test to highlight COG categories overrepresented in our querry selected list compared to our reference transcriptome.
- How do you deal with enrichment, this kind of test for COG categories?
- For the eggnog results KEGG, EC ...ETC, for example how to assign each KO number to metabolism, • genetic information processing • environmental information processing • cellular processes • organismal systems • human diseases • Drug development and draw graphs?