Question: (Closed) ChIP-Seq: MACS2 refinepeak
gravatar for jasonanthonywhite
10 months ago by
jasonanthonywhite20 wrote:

Happy New Year Everyone!!

I am reaching out to inquire about the use of the MACS2 refinepeak package. Looking through the Galaxy website and the MACS github, I have only been able to find this description, "It is an experimental utility that takes raw read alignments, refines peak summits and gives scores measuring balance of forward- backward tags. Inspired by the SPP pipeline."

  1. Can any of you provide additional insight as to how I can incorporate this package into the analysis of a ChIP-Seq data set?
  2. Can I use it to enhance (or validate) MACS2 callpeak results?
  3. How would the scores output by the package be interpreted?
  4. Is there any additional documentation about this package that I can access?


refinepeak spp macs2 chip-seq • 435 views
ADD COMMENTlink written 10 months ago by jasonanthonywhite20

Hello jasonanthonywhite!

It appears that your post has been cross-posted to another site:

This is typically not recommended as it runs the risk of annoying people in both communities.

ADD REPLYlink written 10 months ago by Jennifer Hillman Jackson25k

Hello jasonanthonywhite!

We believe that this post does not fit the main topic of this site.

The post at Biostars will reach a wider community to help with general usage. You could also try the MACS2 Google group.

For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.

If you disagree please tell us why in a reply below, we'll be happy to talk about it.


ADD REPLYlink written 10 months ago by Jennifer Hillman Jackson25k
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