Comb-p for Differentially Methylated Regions identification
0
0
Entering edit mode
14 months ago
sabin ▴ 30

Hi all, I would like to ask if any of you ever used the tool "comb-p" to search for differentially methylated regions. The tool wants in input a column with p-values, obtained from a statistical test, for each cpg. I was wondering whether it's correct to use the p-values obtained from the differentially methylated position analysis did with library champ (function champ.DMP).

Thank you in advance for the help!

methylation regions dmr cpg • 407 views
ADD COMMENT
0
Entering edit mode

I am not familiar with neither of these packages, but I know that p values of closely located cpgs are correlated and you have to correct for autocorrelation before merging p values! :) just as described in methpipe tool paper

ADD REPLY

Login before adding your answer.

Traffic: 1287 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