Hi Ilya, In datatypes_conf.xml, under the bam datatype uncomment out the display application for igv/bam (<display file="igv/bam.xml" />). Links will then appear for bam history items. Thanks for using Galaxy, Dan On Oct 24, 2011, at 5:50 PM, Chorny, Ilya wrote:

I saw some posts and a commit which allows one to use broad IGV within galaxy but I do not see a tool, a link, or an option. Can someone explain how to set that up?

Thanks,

Ilya

Ilya Chorny Ph.D. Bioinformatics Scientist I Illumina, Inc. 9885 Towne Centre Drive San Diego, CA 92121 Work: 858.202.4582 Email: ichorny@illumina.com Website: www.illumina.com

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