Hi Shamsher,
Another alternative is to use bamqc from the qualimap suite. The wrapper you can find at: http://toolshed.g2.bx.psu.edu/view/joachim-jacob/qualimap_suite
You need to install this tool in a local Galaxy, with the qualimap suite installed and perl (see README).
Cheers, Joachim
On 09/04/2013 09:59 PM, shamsher jagat wrote:
I am looking for a tool to perform QC of Bam file especially following functions:
- BAsic information and stat.
- Coverage across reference features- gene/ transcripts.
Is it possible to do it in Galaxy? Thanks
galaxy-user@lists.galaxyproject.org