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Question: cufflinks in Galaxy
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gravatar for garentguuu
5 months ago by
garentguuu • 10
garentguuu • 10 wrote:

Hi,

Recently, I tried to use cufflinks in Galaxy. However, it is running several days and never finished. Because I had used cufflinks before in Galaxy, it run no more than one days. Then I checked my bam file, it is only 2 G. Anyone knows what's the problem of cufflinks in Galaxy?

Thank you!
rna-seq cufflinks galaxy • 209 views
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modified 5 months ago by Jennifer Hillman Jackson ♦ 25k • written 5 months ago by garentguuu • 10
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gravatar for Jennifer Hillman Jackson
5 months ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hi,

I didn't find any queued Cufflinks jobs in your history, all appear completed.

Jobs can run longer than expected when there are problems with the inputs or the settings are made in a way that creates a longer-running job. If you want to double check that inputs are not a problem, the troubleshooting FAQ can help. For help with general Cufflinks help/options, please see the tool manual. I should also point out that this tool is considered deprecated by many in favor of more current RNA-seq methods, those are covered in the Galaxy Tutorials.

Links:

Thanks! Jen, Galaxy team
ADD COMMENT • link written 5 months ago by Jennifer Hillman Jackson ♦ 25k
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