Chip seq coverage
Hi,
I want to estimate the chip-seq coverage for the upstream region, gene body, and downstream region. I have an out put from MACS2 peak calls. I am wondering if there are any tools to determine the peak coverage in upstream region, downstream region and gene body. Are there any tools to deal with this directly instead of writing own scripts?
Thanks
1 answer
Log in to answer this question.
More posts like this
-
ChIPpeakAnno peaks annotation
written by Maurice •
-
How to annotate probe to nearest gene promoter?
written by BioNoobie •
-
Low read coverage in Input: Peak calling/Filtering
written by Ankit
-
methylation coverage in the gene region
written by rthapa •
-
Maximum intensity among overlapping peaks and peak coverage
written by rthapa •
-
how to deal with H3K4me3 and H3K4me1 overlap peaks?
written by ben.kunfang •
-
Salmon: Any downstream DEA tools which uses abundance estimate variation information?
written by Thomas
-
ChIP-Seq annotation question: Should gene annotation based on the nearest TSS or gene body?
written by shimengliu11 •
-
How to find out whether Chip-seq peaks falls within promoter or enhancer region of gene?
written by crazyscientist •
-
What is the difference between narrow peak, Broad peak and a gapped peak of a chip-seq experiment …
written by Saad Khan
