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macs3-project / MACS

MACS -- Model-based Analysis of ChIP-Seq
https://macs3-project.github.io/MACS/
BSD 3-Clause "New" or "Revised" License
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bdgdiff for present or absent? #47

Closed hunterchung closed 10 years ago

hunterchung commented 10 years ago

bdgdiff is good for identify up or down regulated peaks. I am also interested in present or absent peaks. According to Call differential binding events page in the wiki,

A basic requirement is that this region should be at least enriched in either condition.

It looks like bdgdiff cannot identify present or absent peaks. Is it true? Do you have any suggestion for identifying present or absent peaks?

Thanks!

taoliu commented 10 years ago

The present/absent peaks should at least be ‘peaks’ in either condition, so they should be able to be picked up by bdgdiff.

Tao

On Jul 24, 2014, at 2:58 PM, Hunter Chung notifications@github.com wrote:

bdgdiff is good for identify up or down regulated peaks. I am also interested in present or absent peaks. According to Call differential binding events page in the wiki,

A basic requirement is that this region should be at least enriched in either condition.

It looks like bdgdiff cannot identify present or absent peaks. Is it true? Do you have any suggestion for identifying present or absent peaks?

Thanks!

— Reply to this email directly or view it on GitHub.

hunterchung commented 10 years ago

Nice. Thank you!