Hi Katrina, Thanks for passing this along and for the info -- I saw the bam visualization options, but none of the combinations yielded any easy way to see both strand info and variants.
Jesse On Fri, Jul 22, 2011 at 5:49 PM, Katrina Learned <[email protected]>wrote: > Hi Jesse, > > Thank you for your feedback. I will pass this suggestion on to management > for consideration. > > You can change the coloring of the alignments from the track controls page > of your track, which you can get to by right-clicking on the track and > selecting one of the configure options. Here is some information about the > coloring options: > http://genome.ucsc.edu/**goldenPath/help/**hgBamTrackHelp.html<http://genome.ucsc.edu/goldenPath/help/hgBamTrackHelp.html> > > Please contact the mail list ([email protected]) again if you have any > further questions. > > Katrina Learned > UCSC Genome Bioinformatics Group > > Jesse Rodriguez wrote, On 07/22/11 12:56: > >> Hello, >> >> Just as some feedback, I think the default forward/reverse coloring of the >> bam reads makes it very difficult to spot mismatches in the reads. This >> is >> made worse by the fact that the mismatches are only one pixel wide instead >> of being an entire base in width. It would be nice if the forward/reverse >> coloring could be customized at the very least since lighter colors would >> make the red of the mismatches stand out more, even if they weren't made 1 >> base wide. >> >> Jesse Rodriguez >> >> PhD Candidate >> Biomedical Informatics Program >> Stanford University >> ______________________________**_________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/**mailman/listinfo/genome<https://lists.soe.ucsc.edu/mailman/listinfo/genome> >> > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
