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Cuffdiff Output Explanation

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  • Cuffdiff Output Explanation

    Hi all,

    While trying to understand the output of the cuffdiff command I decided to create an image of what I believe cuffdiff is measuring. I wanted to share this image in case others had similar questions:

    What Cuffdiff Measures

    Feel free to comment on whether it is wrong or not. I am pretty sure I probably missed or misinterpreted something.

  • #2
    Hi- thanks for this fongchun. Once we are at it, a while ago I also made a diagram to visualize how the various output files from cuffdiff/cuffcompare relate to each other. See attached picture.

    Big disclaimer: I haven't double checked whether it is entirely correct. It is deliberately not complete.

    Any and all comments welcome.

    Dario
    Attached Files

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    • #3
      Thanks very much fongchun for that image! Its very useful

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      • #4
        You're welcome. Glad it was helpful!

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        • #5
          I've updated the image (v2) to fix some errors in the biology and simplified it a bit. Enjoy!

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          • #6
            Thanks so much for your explanation. It helps me so much.
            quordle weaver game

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