Hi Catheryn,
for ChIP-seq analysis, normalisation and BAM file correlation we use
deeptTools. Here you can read more about it:
Dear Galaxy,
I am trying to analyze my ChIP-Seq data from Illumina using Galaxy. I
have 2 datasets that I want to compare after normalizing each of them
to their respective inputs, and these 2 datasets have very different
number of reads to start with, is there a way to first normalize each
dataset to total number of reads in Galaxy?
Thanks. Your help is very much appreciated.
Catheryn
___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at
usegalaxy.org. Please keep all replies on the list by
using "reply all" in your mail client. For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists,
please use the interface at:
http://lists.bx.psu.edu/
To search Galaxy mailing lists use the unified search at:
http://galaxyproject.org/search/mailinglists/