problem with using CuffMerge in Galaxy

Question

[nazaninhoseinkhan]

Dear all,

I want to find differential expressed genes between two RNASeq samples in Galaxy.

I want to use CuffMerge to merge assembled transcripts produced by Cufflinks.

In the first box the list of all Cufflinks output is shown(when I choose multiple datasets), but when I choose the option to import additional gtf file , it is empty and says me there is nothing to show.

Can you help me find the problem

Thank you in advance

Nazanin

[Devon Ryan]

Please post this on the Galaxy help site.

[mingaolele]

Hi Nazanin,

I'm facing the same problem when I used Cuffmerge in galaxy. Could you tell me how to fix this problem? Thanks.

Best, Cassie

Answer 1

[Jennifer Hillman Jackson]

Thanks Devon!

For any interested, follow the post here: https://biostar.usegalaxy.org/p/17618/

Jen, Galaxy team