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Old 07-25-2012, 05:10 AM   #1
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Location: Africa

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Question ChIPseq wig file with the input subtracted from ChIP sample

Is there a way to make just one wig file with the input subtracted from ChIP sample? I mean I have a ChIPseq data read aligned BED files for both ChIP and Control. I would like to have one WIG file where input is subtracted already. Any one knows any simple tool/script/method. (except SPP)
abmmki is offline   Reply With Quote
Old 08-02-2012, 06:51 PM   #2
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GenPlay can do that.

I think bedtools (subtractBed) can as well but your files have to be BED/GFF format first. You can convert the output to a bedgraph and that can be converted to a wig using tools from UCSC

I'm sure there's other tools that I'm not aware of too.
captainentropy is offline   Reply With Quote

wig chip-seq count-data

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