I use IGV outside of Galaxy. If you download your bam and bam index files you can load those and your reference into IGV to visualise them. On 04/08/2011 00:03, Jiannong Xu wrote:
Hi Jen,
I mapped illumine reads to draft genomic contigs, and try to visualize the mapping. Is there any way I can use my own reference contigs for visualization?
Thanks
John Xu NMSU
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