Question: Effective Genome Size Of Mm10 For Macs14
gravatar for Sukhi Singh
8.4 years ago by
Sukhi Singh10k
Sukhi Singh10k wrote:

Has anyone already figured out the effective or mappable genome size of mm10 to be used with Macs as an input argument.

-g GSIZE, --gsize=GSIZE Effective genome size. It can be 1.0e+9 or 1000000000, or shortcuts:'hs' for human (2.7e9), 'mm' for mouse (1.87e9), 'ce' for C. elegans (9e7) and 'dm' for fruitfly (1.2e8), Default:hs


macs chip-seq • 6.3k views
ADD COMMENTlink written 8.4 years ago by Sukhi Singh10k

Any reason you don't want to use the mm9 value? I can't imagine it's that different, and if their method is that sensitive to this parameter, you probably won't be too happy anyways...

ADD REPLYlink written 8.4 years ago by matted7.4k

Yeah, I think the results wouldn't be effected that much, still just thought someone have already done the exercise calculating it :)

ADD REPLYlink written 8.4 years ago by Sukhi Singh10k

I'm going to try this tool GEM for a different genome, you could try it.!topic/macs-announcement/-iIDkVwenn8

ADD REPLYlink written 6.3 years ago by Madelaine Gogol5.2k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1809 users visited in the last hour