Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
ChIP-Seq: Normalization of ChIP-seq data with control. Newsbot! Literature Watch 0 08-14-2012 02:00 AM
ChIP-Seq: A strand specific high resolution normalization method for chip-sequencing Newsbot! Literature Watch 0 01-18-2012 02:20 AM
chip-seq normalization when two sample total reads vary largely tujchl Bioinformatics 0 01-10-2012 03:00 AM
ChIP-Seq: Analyzing ChIP-seq Data: Preprocessing, Normalization, Differential Identif Newsbot! Literature Watch 0 12-02-2011 04:51 AM

Thread Tools
Old 02-13-2016, 05:01 AM   #1
Junior Member
Location: India

Join Date: Mar 2013
Posts: 2
Smile Sample normalization - ChIP-Seq


I am new here. I have started to analyse ChIP-Seq data. I have 2 conditions: High Fed and Control diets within different time points.

So, I have lots of BAM files for each sample. Now I want to do peak calling and finally motif prediction within the significant peaks.

However, I would need to somehow normalize my data to compare peaks.
Any idea howto to approach the problem ?
Should I do it before peak calling or after ? I heard something like downsampling but not sure howto use it in my case.
Any suggestions are most welcome.
DNA_Monk is offline   Reply With Quote

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off

All times are GMT -8. The time now is 08:45 PM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2018, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO