Hi Darshan, Can you send us a short example region from your bedGraph file that illustrates the problem? You can send it either as text within an email, or as an attachment directly to me (the [email protected] address does not accept attachments).
I should point out that we can help with the bedGraphToBigWig program, but if you end up needing help with genomeCoverageBed, you will need to contact the bedTools project: http://code.google.com/p/bedtools/ -- Brooke Rhead UCSC Genome Bioinformatics Group On 11/19/11 10:53 PM, Darshan Singh wrote: > Hi, > > I created bedgraph from bam files using genomeCoverageBed. The > bedgraph file looks good. > Then I created bigwig file from bedgraph using bedGraphToBigWig. > > I put the bigwig on a webserver. > > When I view the bigwig file on the UCSC genome browser, I see some weird > things. > 1. The areas with zero coverage are shown with flat high coverage. > > The track is created as > track type=bigWig name="ABC Coverage" visibility=full color=200,100,0 > altColor=0,100,200 bigDataUrl=http:/myserver/ABC.bw > > Please help > > Thanks > Darshan > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
