Question: Is there an alternative tool to plot RNA-Seq differential expression than cummeRbund?
0
gravatar for Wanderer
8 months ago by
Wanderer10
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 8 months ago by domi8440 • written 8 months ago by Wanderer10
1
gravatar for Jennifer Hillman Jackson
8 months ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

Yes, the plots with CummeRbund are problematic right now, details: https://github.com/galaxyproject/tools-devteam/issues/340

Please see the help for using DeSeq2 and other plotting tools included in the RNA-seq tutorials here for example alternatives: https://galaxyproject.org/learn/

Thanks! Jen, Galaxy team

ADD COMMENTlink modified 8 months ago • written 8 months ago by Jennifer Hillman Jackson25k
1
gravatar for domi84
8 months ago by
domi8440
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 8 months ago by domi8440
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 90 users visited in the last hour