running Differential Expression on Cuffmerge tracking file

bhill

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Join Date: Aug 2011

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running Differential Expression on Cuffmerge tracking file

05-02-2013, 07:27 AM

My team is looking into running Differential Expression via GenePattern on the FPKM_tracking output from either Cuffmerge or Cuffcompare. Does anyone have experience with this or any warnings away from doing this, rather than using the FPKM_tracking output from cuffdiff?

Thanks in advance

Barbara Hill
Software Test Engineer
Cancer Informatics Development
Broad Institute of Harvard and MIT
Cambridge, MA
USA
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