search

macs3-project / MACS

MACS -- Model-based Analysis of ChIP-Seq
https://macs3-project.github.io/MACS/
BSD 3-Clause "New" or "Revised" License
700 stars 268 forks source link

Q: HMMRATAC output and options for _summit.bed #633

Open kawairine opened 7 months ago

kawairine commented 7 months ago

Hi,

I have the same question as in (https://github.com/macs3-project/MACS/issues/592#issue-1867137129)

  1. and in general, are the columns generated here the same as in the original paper? (https://github.com/LiuLabUB/HMMRATAC/blob/master/HMMRATAC_Guide.md#commandline-options),

  2. Another question: In the original implementation, there is a Name_summits.bed output, is there a way I can also call summit in your implementation?

Many thanks!

Best, Kawai

mrendleman commented 7 months ago

For question 1: the columns are mostly the same as the original paper, though I don't think the changes are documented anywhere yet. See this comment for my interpretation of the differences.