Question: topGO: genes annotated to a significant GO term
0
gravatar for Brian Smith
4.3 years ago by
Brian Smith120
United States
Brian Smith120 wrote:

Hi,

I have used topGO to create a topGO object and run the enrichment test. So far, so good. Now I want to see which of my selected genes have mapped to the significant GO term. I use:

 

ann.genes <- genesInTerm(GOdata, sel.terms) ## get the annotations for a significant GO term (ie. sel.terms parameter)

 

However, none of the genes in the ann.genes is in my initial set of differential/selected genes (that I want to find the enrichment for)! How is this term returned as 'significant', when none of my selected genes belongs to it?

Where am I going wrong? 

thanks!

PS: I'd like to send example data, but it's too large, and i'm not sure how to attach it so that the example is reproducible..

 

 

topgo • 1.6k views
ADD COMMENTlink modified 4.3 years ago • written 4.3 years ago by Brian Smith120
Answer: topGO: genes annotated to a significant GO term
0
gravatar for Brian Smith
4.3 years ago by
Brian Smith120
United States
Brian Smith120 wrote:

nevermind, got it. My mistake!

thanks!

ADD COMMENTlink written 4.3 years ago by Brian Smith120
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 161 users visited in the last hour