Question: CummerRbund sqlite input file doesnt correspond to Cuffdiff output
gravatar for Wanderer
11 weeks ago by
Wanderer10 wrote:

Is Cummerbund working right now? I tried to use but it is asking me the sqlite file, but cuffdiff doesnt output none sqlite file. How can I make it work?

Thank you!

galaxy cuffdiff • 119 views
ADD COMMENTlink modified 11 weeks ago • written 11 weeks ago by Wanderer10
gravatar for Jennifer Hillman Jackson
11 weeks ago by
United States
Jennifer Hillman Jackson24k wrote:


If you are running Cuffdiff outside of Galaxy, the Galaxy Cummerbund wrapper wouldn't be an appropriate choice. It expects output from the Galaxy Cuffdiff wrapper.

Two choices:

  • Run the Cuffdiff analysis in Galaxy and output the SQLite database. Do this by setting the option "Generate SQLite" to "yes" on the Cuffdiff tool form.

  • Use Cummerbund outside of Galaxy.

Thanks! Jen, Galaxy team

ADD COMMENTlink written 11 weeks ago by Jennifer Hillman Jackson24k

Thank you so much! love you!!

ADD REPLYlink written 11 weeks ago by Wanderer10
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