SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
Interpreting bizarre cross-correlation results pkstarstorm05 Bioinformatics 0 07-30-2016 09:40 PM
cross correlation for paired-end ChIP-seq fanli Bioinformatics 0 08-19-2015 02:27 PM
Relative STrand Cross-correlation coefficient (RSC) negative value??? wilson90 Bioinformatics 0 02-15-2015 02:03 AM
Tools to plot strand cross correlation for a ChIP-seq experiment liz_is Bioinformatics 2 11-28-2012 01:44 AM

Reply
 
Thread Tools
Old 07-24-2018, 05:19 AM   #1
balthasar0810
Junior Member
 
Location: Berlin

Join Date: Apr 2014
Posts: 5
Default ChIP-seq cross correlation

Dear all,

sorry to bother you but I still do not get why there is a phantom peak for the read length in cross correlation analysis of NGS data.
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3431496/

Thanks for any explanations! Chris
balthasar0810 is offline   Reply With Quote
Old 07-24-2018, 09:32 AM   #2
HESmith
Senior Member
 
Location: Bethesda MD

Join Date: Oct 2009
Posts: 498
Default

Explanation here (see section 2.3).
HESmith is offline   Reply With Quote
Old 07-24-2018, 09:50 AM   #3
balthasar0810
Junior Member
 
Location: Berlin

Join Date: Apr 2014
Posts: 5
Default

Thanks, HESmith. So, it is all about including unmappable positions in the cross-correlation computation? It disappears when only uniquely mapped reads are left over?
balthasar0810 is offline   Reply With Quote
Reply

Tags
chip-seq, cross-correlation

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 02:20 AM.


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