Feature request: view multiple genomes in same session

[Joe Georgeson]

Hi IGV devs,

A feature I would find very useful (and I hope others too!) is the ability to view multiple genomes in the same session through the lens of a multiple sequence alignment of the genomes/transcripts. Here, a bam/bed/bw file would be aligned to a specific genome, and because the genomes/transcripts would be aligned to each other, the alignment/coverage of each sample could be easily compared across organisms.

If there is already a tool that does this, or if there is a roundabout way to do this in IGV, I'll be happy if someone can share their knowledge.

Best,

Joe

[James Robinson]

You can load multiple aligned sequences in the UCSC "Multiple Alignment Format".   See http://software.broadinstitute.org/software/igv/MultipleAlignmentFormat.     However I'm not following your comment on comparing coverage, the alignments and coverage from a bam file is to a particular sequence.

[Joe Georgeson]

Thanks James

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