Dear all,
I have ChIP-seq data now and trying to make plot for each peak. I have .bam file and peak regions. how can I make coverage plot (RPKM) for each peak?
For example, I have a peak covers genome from 1kb to 1.5kb, so what I want is a line plot shows the reads coverage over the region, Y axis is RPKM and X axis is genome region from 1 to 1.5 kb, like draft in attached picture. preferably, I will plot IP sample with negative control together.
I didn't find good program to do this, so if you know any program, or you have any suggestion, please tell me. Thank you very much!
Best,
/Kun
I have ChIP-seq data now and trying to make plot for each peak. I have .bam file and peak regions. how can I make coverage plot (RPKM) for each peak?
For example, I have a peak covers genome from 1kb to 1.5kb, so what I want is a line plot shows the reads coverage over the region, Y axis is RPKM and X axis is genome region from 1 to 1.5 kb, like draft in attached picture. preferably, I will plot IP sample with negative control together.
I didn't find good program to do this, so if you know any program, or you have any suggestion, please tell me. Thank you very much!
Best,
/Kun
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