Viewing Rearrangements in BAM files
I very much like GenomeBrowse. However, I am examining complex rearrangements and structural variation in BAM files (detected by algoritms). I require the ability to easily identify which reads have a mate that maps to another chromosome, which reads have segments that do not map well partway through (and are therefore are perhaps retrogene or other insertion), which reads have larger or smaller insert sizes, etc... is this something that GenomeBrowse is able to do? It seems an obvious feature, and I can do so in IGV... but I far prefer GenomeBrowse if the functionality is available.
