Question: TopGO ks test using a score different from p-value
0
gravatar for eagomezc
8 months ago by
eagomezc0
eagomezc0 wrote:

Hello,

I am starting using topGO for my GO enrichment analysis and I am running fisher and ks separately. Fisher works fine, but I am not sure about my ks results. My question is: for the ks test, can I use a score different to a p-value? At the moment, I'm working with tajima's D, which generates values between -4 and 4, and my Selected Genes are those with a value higher than 2. So, I want to know if that does not represent any conflict for ks at the moment to run the test.

Thanks  

ADD COMMENTlink modified 8 months ago by Lluís Revilla Sancho460 • written 8 months ago by eagomezc0
Answer: TopGO ks test using a score different from p-value
0
gravatar for Lluís Revilla Sancho
8 months ago by
European Union
Lluís Revilla Sancho460 wrote:

Theoretically yes, you could use it, you would need to change the selectFun argument, and provide a function that selects the desired genes.

However, I think you won't be able to do it because, what I recall when I tried, the selectFun hadn't changed (it is x < 0.05) and it didn't select any genes.

ADD COMMENTlink written 8 months ago by Lluís Revilla Sancho460
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: 155 users visited in the last hour