A colleague has asked me to set up a galaxy server for purpose of running tophat/cufflinks.

A recent paper in BMC Genomics would indicate that those tools are integrated into Galaxy.

When I download (hg clone) the distribution, I only see tophat, but none of the other tuxedo software. The funny thing that is I google bitbucket, cufflinks, galaxy — I can find a few XML files to run the software but I can’t figure out how to get those files into my local install…I tried the stable and default distribution, but neither included these files…

Is there something that I am missing in the download for the ngs-rna tools?

Thanks!

Brandi Cantarel

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Brandi Cantarel, PhD
Bioinformatics Research Scientist
Baylor Institute for Immunology Research
Baylor Health Care System
214-818-8673 (office)

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