ANANSE: REMAP genome coverage

DOI10.5281/zenodo.6404593Zenodo6404593MaRDI QIDQ6681681FDOQ6681681

Dataset published at Zenodo repository.

Simon J van Heeringen, Branco M.h. Heuts

Publication date: 1 April 2022

Copyright license: Creative Commons Attribution 4.0 International

Description

hg38:Genome coverage in bigwig format from ReMap2022 TF ChIP-seq database (hg38). All peaks in bed format (https://remap.univ-amu.fr/storage/remap2022/hg38/MACS2/remap2022_all_macs2_hg38_v1_0.bed.gz) were computed to bigwig format using: zcat remap2022_all_macs2_hg38_v1_0.bed.gz | sed '/chrEBV/d' | cut -f 1,7,8 | bedtools slop -i - -g /hg38.fa.sizes -b 25 | sort -k 1,1 | bedtools genomecov -bg -g /hg38.fa.sizes -i -  tmp.bg  bedGraphToBigWig tmp.bg / hg38.fa.sizes remap2022.hg38.w50.bw  rm tmp.bg hg19:Genome coverage in bigwig format from ReMap2022 TF ChIP-seq database (hg19). All peaks in bed format (https://remap.univ-amu.fr/storage/remap2022/hg19/MACS2/remap2022_all_macs2_hg19_v1_0.bed.gz) were computed to bigwig format using: zcat remap2022_all_macs2_hg19_v1_0.bed.gz | sed '/chrEBV/d' | cut -f 1,7,8 | bedtools slop -i - -g /hg19.fa.sizes -b 25 | sort -k 1,1 | bedtools genomecov -bg -g /hg19.fa.sizes -i -  tmp.bg  bedGraphToBigWig tmp.bg / hg19.fa.sizes remap2022.hg19.w50.bw  rm tmp.bg

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