Question: Chip-Seq Analysis: How To Pair Plus And Minus Strand Peaks
0
gravatar for Ashutosh
6.7 years ago by
Ashutosh10
India, Centre for Cellular and Molecular Biology
Ashutosh10 wrote:

After peak calling with GeneTrack, how to pair plus and minus strand peaks if peaks are on 3' end to each other & < 100 bp apart. I also want to know, how to normalize ChIP-exo data such that total tag count inside of background regions are same. background regions are defined as any region that lacks a peak pair within 100 bp.

normalization • 2.4k views
ADD COMMENTlink modified 5.5 years ago by dnaseiseq210 • written 6.7 years ago by Ashutosh10
1
gravatar for Istvan Albert
6.7 years ago by
Istvan Albert ♦♦ 85k
University Park, USA
Istvan Albert ♦♦ 85k wrote:

You can use bedtools to perform various kinds of interval operations.

ADD COMMENTlink modified 6.7 years ago • written 6.7 years ago by Istvan Albert ♦♦ 85k
1
gravatar for dnaseiseq
5.5 years ago by
dnaseiseq210
United Kingdom
dnaseiseq210 wrote:

CexoR: An R/Bioconductor package to uncover high-resolution protein-DNA interactions in ChIP-exo replicates

 

 

ADD COMMENTlink modified 5.5 years ago • written 5.5 years ago by dnaseiseq210
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