How to do the peak calling for introns?
Hi all,
I have to analyse the clip-seq data. i have mapped all the file and i have to do the peakcalling. The issue what i have is that i have to call the peaks only for the introns. which i don't know how to do. The one approach will be split the intron from GTF file and use the bam files to calculate the coverage but how do i call the peaks for that. can anyone have such experience or is there any other better way to do?
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
How to normalize intron counts?
written by PK •
-
How to calculate Exon-Intron junction perbase coverage?
written by PK •
-
Percentage of exons, introns and intergenic regions
written by Re •
-
What is the advantage of mapping RNA-Seq against genome?
written by PK •
-
where can i find all TE elements GTF?
written by PK •
-
calculate genome intron length
written by Nobody •
-
How to subset peaks based on RNA sub class?
written by PK •
-
intersect between introns and the UTR/CDS bed files
written by Kai_Qi
-
How to calculate per base coverage from the .bam file?
written by PK •
-
Intron cordinates requires for known exons
written by HK •
Call all peaks and then subset to the regions you want. Everything else totally screws up the statistics of the peak caller.
Sure I will try.