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problem with using CuffMerge in Galaxy

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

rnaseq galaxy cuffmerge
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updated by Jennifer Hillman Jackson Jennifer Hillman Jackson • written by nazaninhoseinkhan nazaninhoseinkhan

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

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written by mingaolele • mingaolele

1 answer

Thanks Devon!

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

Jen, Galaxy team

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written by Jennifer Hillman Jackson Jennifer Hillman Jackson

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