Question: Is there an alternative tool to plot RNA-Seq differential expression than cummeRbund?
gravatar for Wanderer
11 months ago by
Wanderer10 wrote:

<hey guys="">

I have some results from cuffdiff to plot but I cant use the cummeRbund, is there another tool that can accomplish the same job? I already tried several times to use the cummeRbund but isnt working.

Thank you for your time!

ADD COMMENTlink modified 10 months ago by domi8440 • written 11 months ago by Wanderer10
gravatar for Jennifer Hillman Jackson
11 months ago by
United States
Jennifer Hillman Jackson25k wrote:


Yes, the plots with CummeRbund are problematic right now, details:

Please see the help for using DeSeq2 and other plotting tools included in the RNA-seq tutorials here for example alternatives:

Thanks! Jen, Galaxy team

ADD COMMENTlink modified 11 months ago • written 11 months ago by Jennifer Hillman Jackson25k
gravatar for domi84
10 months ago by
Glasgow University
domi8440 wrote:

Hello, I recently wrote a python module to plot genes expression. It is available here. Any feedback would be appreciate. Thanks Dom

ADD COMMENTlink written 10 months ago by domi8440
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