Question: ngsplot-how to get multiplot around the IP peak region and the genes nearest to peak region?
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gravatar for lhaiyan3
3 months ago by
lhaiyan320
United States
lhaiyan320 wrote:

Dear all,

I have the 3 IP (TF1, TF2, TF3) data, and I use mac2 callpeak to get the peak files (TF1.peak). I want to get the multiplot fig about three IP signals at 1, TF1 peak region 2, these IP singals at genes nearest to TF1 peaks . I am not sure what genelist file I should put in the config file? I tried to take first 3 columns from TF1.peak file and save as bed fie, but it did not work.

ngs.plot.r -G hg19 -R tss -C config6.txt -O epak.tss -D ensembl -FL 300

TF1.dd.bam TF1.bed "TF1" TF2.dd.bam TF1.bed "TF2"

Can anyone please give me some suggestions? Thanks very much for your great help.

best

HY

chip-seq • 154 views
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