User: marissasp

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marissasp0
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Posts by marissasp

<prev • 6 results • page 1 of 1 • next >
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Permanently deleted and purged data, says 0 bytes but still taking up space
... I've permanently deleted and purged over half of my data, says 0 bytes for those files. Still getting a message that I'm using over 100% of my allocated space. Thanks for your help!! ...
galaxy written 10 weeks ago by marissasp0 • updated 10 weeks ago by Jennifer Hillman Jackson23k
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Answer: A: TopHat Fata Error: Fusion search fails with Bowtie2, how to try Bowtie1 option?
... I've tried running it on Stampede twice, it's failed both times with the error message "Remote job server indicated a problem running or monitoring this job".  Is TACC the correct version of Stampede for this?  Thank you!!   ...
written 21 months ago by marissasp0
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Answer: A: TopHat Fata Error: Fusion search fails with Bowtie2, how to try Bowtie1 option?
... Thanks!  Re-running with TACC Stampede now. ...
written 21 months ago by marissasp0
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Answer: A: TopHat Fata Error: Fusion search fails with Bowtie2, how to try Bowtie1 option?
... Hi Jen, Thank you so much for your help!  It has failed another three times.  On the first attempt, TopHat failed when re-run, with an error message saying it had run longer than the maximum allowed run time.  I then tried running it using a smaller GTF (iGenomes in the Shared Data folder on Main, ...
written 21 months ago by marissasp0
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Answer: A: TopHat Fata Error: Fusion search fails with Bowtie2, how to try Bowtie1 option?
... OK thank you!  I'm running it again now.   ...
written 22 months ago by marissasp0
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TopHat Fata Error: Fusion search fails with Bowtie2, how to try Bowtie1 option? Also truncates file during genome alignment
... I am trying to run TopHat using a GTF annotation to build a transcriptome index, and also search for fusions.  The data becomes truncated during the second alignment step, to the reference genome.  I also receive a warning to try Bowtie 1 not Bowtie 2 when looking for fusions, but am not sure how to ...
tophat written 22 months ago by marissasp0

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