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  • guzhi100
    Member
    • Feb 2012
    • 15
    #1

    cuffdiff log2 value

    Hi,

    I am analyzing my RNA-Seq data. After running cuffdiff, I got a list of differentially expressed transcrpts or genes.

    As far as I know, log2 value = fold change. However, there are minus values. Is this possible?? log2 value can not be minus. Did I miss something??



    Looking forward to your help.

    Thanks in advance.

    Best
    Tags: None
    • kopi-o
      Senior Member
      • Feb 2008
      • 319
      #2
      The log2 value can most definitely be negative. Why not?

        Comment

        • sdriscoll
          I like code
          • Sep 2009
          • 436
          #3
          Try log2(0.5) and log2(2). Log2 scale is convenient.
          /* Shawn Driscoll, Gene Expression Laboratory, Pfaff
          Salk Institute for Biological Studies, La Jolla, CA, USA */

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