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slny 04-07-2013 02:05 PM

CHIP-Seq analysis
I'm very new in ChIP Seq data analysis.

Is there any CHIP Seq analysis pipeline that I can use? Any tutorial of CHIP Seq data analysis?


Jluis 04-08-2013 04:57 AM

Hi slny,

Have a look at this pipeline. It has been set up by the ENCODE project as a reference for ChIPseq analysis.

By the way, I'd like to know which is the opinion of the bioinformatic analysts community about this particular ENCODE pipeline.


With best wishes

SylvainL 06-22-2016 01:49 AM

Hi, it's an old thread but I have a comment...

I had to re-run the same pipeline on the same ChIPseqs using actually the ENCODE guideline and I am facing something I didn't expect: I do not get the same results! Not by far but still different. Did you experience that? Can it be due to the idr step?

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