toptable sort .by set
1
0
Entering edit mode
snowmattin • 0
@69358726
Last seen 9 days ago
Germany

Dear guys,

I am trying to use limma to find the DEGs, and the topTable function has a parameter sort.by, which explains that "p" for "P", so when code as topTreat(fit, coef=1, sort.by="p", resort.by=NULL, ...) , is it sort by p-value or adjusted p-value?

Thanks a lot!

https://www.rdocumentation.org/packages/limma/versions/3.28.14/topics/toptable

limma rnaseqGene • 83 views
ADD COMMENT
1
Entering edit mode
@gordon-smyth
Last seen 23 minutes ago
WEHI, Melbourne, Australia

Sorting by p-value is the same as sorting by adjusted p-value.

ADD COMMENT
0
Entering edit mode

Thanks a lot! What if the p-value has much difference from the adjusted p-value?

ADD REPLY

Login before adding your answer.

Traffic: 142 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6