ChIP-seq cross correlation

balthasar0810

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#1

ChIP-seq cross correlation

07-24-2018, 05:19 AM

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
Tags: chip-seq, cross-correlation
HESmith

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07-24-2018, 09:32 AM

Explanation here (see section 2.3).
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balthasar0810

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#3

07-24-2018, 09:50 AM

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?
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