MACS2: What is in 4th column of treat_pvalue.bdg/treat_qvalue.bdg files?
0
0
Entering edit mode
3.9 years ago
salamandra ▴ 420

MACS2 output files, 'treat_pvalue.bdg' and 'treat_qvalue.bdg', contain only significant peaks (with p-value/q-value below user defined threshold).

But is 4th column of these files the difference in intensity (score) between ChIP and Input, or is it intensity (score) for ChIP only?

If it is the intensity for ChIP only, then what tools can get the difference between ChIP and Input intensities?

ChIP-Seq MACS2 • 1.2k views
ADD COMMENT
0
Entering edit mode

hello, I am a freshman in analyzing the ATAC-seq data. I am confused that I can not get 'treat_pvalue.bdg' and 'treat_qvalue.bdg' in the MACS2 output files. Could you like to share your experience with me? Thanks

ADD REPLY
0
Entering edit mode

For macs2 questions it's better to post at: https://github.com/taoliu/MACS where developers can help you

ADD REPLY

Login before adding your answer.

Traffic: 2025 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