A colleague has asked me to set up a galaxy server for purpose of running 
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?

Brandi Cantarel

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

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