Question: create sqlite from cuffdiff terminal
gravatar for dimitrischat
9 months ago by
dimitrischat0 wrote:

if there is a way to put an option when you run cuffdiff from terminal so that you can get an sqlite output? or to get the results from cuffdiff ( again by terminal ) and make an sqlite output. is there a way?

rna-seq • 212 views
ADD COMMENTlink modified 9 months ago by Jennifer Hillman Jackson24k • written 9 months ago by dimitrischat0
gravatar for Jennifer Hillman Jackson
9 months ago by
United States
Jennifer Hillman Jackson24k wrote:


While Galaxy tools can be run line-command, we do not recommend running this particular tool with this option outside of Galaxy. Doing so will likely not produce the desired results.

Instead, run the tool within Galaxy. You can always download the output and use it locally.

If you program, the API could be one way to accomplish the task without needing to go through the GUI. Bioblend is a very popular choice:

Thanks! Jen, Galaxy team

ADD COMMENTlink written 9 months ago by Jennifer Hillman Jackson24k
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