Body: <p>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.</p>
  <p>After running eggnog mapper, I extract the list of GO, KEGG and COG terms associated.</p>
  <p>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.</p>
  <p>My questions:</p>
  <ul>
  <li>How do you deal with enrichment, this kind of test for COG categories?</li>
  <li>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?</li>
  </ul>
  
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2023-03-05T13:00:40.250Z
Comments.Text: Please clarify your specific problem or provide additional details to highlight exactly what you need. As it's currently written, it's hard to tell exactly what you're asking.
Comments.UserDisplayName: Community
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2023-03-05T16:23:40.657Z
Comments.Text: Hi @se-tima, welcome to Bioinformatics Stack Exchange. The Stack Exchange question / answer approach works best for single specific questions, and not so great for general discussion. If you want a more interactive experience, I recommend you try a discussion website like [reddit](https://reddit.com/r/bioinformatics). Otherwise, please try to limit your post to a single question. If you have multiple questions, feel free to create separate posts for each one.
Comments.UserDisplayName: gringer
Tags: <go-enrichment><kegg><eggnog>
Title: COG Enrichment, the overrepresentation test between annotated transcriptome and a set of annotated gene, eggnog-mapper annotation results
ThreadText: # COG Enrichment, the overrepresentation test between annotated transcriptome and a set of annotated gene, eggnog-mapper annotation results
  
  (Asked by: username_0 on 2023-03-05)
  
  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.
  
  My questions:
  
  * 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?
  
  **Tags:** go-enrichment, kegg, eggnog
  
  > **Comments:**
  > **username_1**: Please clarify your specific problem or provide additional details to highlight exactly what you need. As it's currently written, it's hard to tell exactly what you're asking.  
  > **username_2**: Hi @username_0, welcome to Bioinformatics Stack Exchange. The Stack Exchange question / answer approach works best for single specific questions, and not so great for general discussion. If you want a more interactive experience, I recommend you try a discussion website like [reddit](https://reddit.com/r/bioinformatics). Otherwise, please try to limit your post to a single question. If you have multiple questions, feel free to create separate posts for each one.  
  
  ---
  
  ## 0 answers
  
  