[Bioc-sig-seq] Peaks

[Deepayan Sarkar]

On Tue, Aug 11, 2009 at 3:17 AM, Ali Mohamadian<moham_am at yahoo.com> wrote:
> Dear All,
> I have two chip-seq data sets and want to compare them. I have found overlapped and non overlapped peaks but is
> there any R package to compare the length, height or area under peaks.

IRanges has viewSums(), viewMaxs(), etc. that are relevant once you
get your data into a suitable form.  Take a look at the vignette of
the (devel) package chipseq:

http://bioconductor.org/packages/2.5/bioc/html/chipseq.html

and let us know if you have questions.

-Deepayan