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  • bhill
    Junior Member
    • Aug 2011
    • 5
    #1

    running Differential Expression on Cuffmerge tracking file

    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
    Tags: None
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