Question: (Closed) How can I solve Galaxy cuffmerge error?
gravatar for nori
15 months ago by
nori10 wrote:

Please advise how to proceed. I mapped the read of RNAseq to the genome with hisat2, and then cufflinks with Galaxy, but cuffmerge in Galaxy of GTF file is an error and I am in trouble.

Contents GTF file (s) produced by Cufflinks 28: assembled transcripts, 39: assembled transcripts, 45: assembled transcripts Use Reference Annotation Yes Reference Annotation 25: Xenobase_gene_model.gff3.txt Use Sequence Data No Minimum isoform fraction 0.05 Job Resource Parameters

The error message is Error running cuffmerge:

[Wed Aug 14 19:27:50 2019] Beginning transcriptome assembly merge

[Wed Aug 14 19:27:50 2019] Preparing output location cm_output / [Wed Aug 14 19:28:06 2019] Converting GTF files to SA

rna-seq software error • 303 views
ADD COMMENTlink written 15 months ago by nori10

check out this forum

ADD REPLYlink written 15 months ago by gb1.9k

Hello nori!

We believe that this post does not fit the main topic of this site.

Please ask over at the Galaxy forum, gb linked it below.

For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.

If you disagree please tell us why in a reply below, we'll be happy to talk about it.


ADD REPLYlink written 15 months ago by ATpoint41k
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