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Question: Cuffcompare Error
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gravatar for Alessia D
7.1 years ago by
Alessia D • 30
Alessia D • 30 wrote:
Hi, I am trying to run Cuffcompare on a set of 6 Cufflinks-generated datasets (3 replicates of 2 conditions). I am consistently getting the following error: Error running cuffcompare. Warning: Your version of Cufflinks is not up-to-date. It is recommended that you upgrade to Cufflinks v1.1.0 to benefit from the most recent features and bug fixes (http://cufflinks.cbcb.umd.edu). Error: no XLocus created for transcript CUFF.34072.1 (file ./input3) [2, 2], on chrY+:274296-277218 However, if I run Cuffcompare on the 2 conditions separately (3x Cufflinks datasets), everything works fine. Does anyone know why this is? Thanks Alessia
rna-seq cufflinks • 974 views
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modified 7.1 years ago by Jennifer Hillman Jackson ♦ 25k • written 7.1 years ago by Alessia D • 30
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gravatar for Jennifer Hillman Jackson
7.1 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:
Hello Alessia, This appears to be a known bug in Cuffcompare that can be worked around by reordering the input files: http://seqanswers.com/forums/showthread.php?t=5809 If you have questions about this, it would probably be worth asking the tool authors for input/advice at tophat.cufflinks@gmail.com. Best wishes for your project, Jen Galaxy team -- Jennifer Jackson http://usegalaxy.org http://galaxyproject.org/wiki/Support
ADD COMMENT • link written 7.1 years ago by Jennifer Hillman Jackson ♦ 25k
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