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  • Nothing happens after cuffcompare.

    Hello all,

    With a cuffmerge result (into ./cufflinks_all/merged.gtf), I am trying to cuffcompare it against a reference gtf (../public/publicCuffMergedLncProts/merged.gtf) as follows:

    [...]$ cuffcompare -V -o ./testOut -r ../public/publicCuffMergedLncProts/merged.gtf -C ./cufflinks_all/merged.gtf
    You are using Cufflinks v2.1.1, which is the most recent release.
    Loading reference transcripts..
    ..reference annotation loaded
    Prefix for output files: testOut
    Processing qfile #1: ./cufflinks_all/merged.gtf
    Loading transcripts from ./cufflinks_all/merged.gtf..
    462 redundant cufflinks transfrags discarded.
    Found 15380 transcripts with undetermined strand.
    Tracking transcripts across 1 query files..
    Cleaning up..
    Done.

    But after all this, nothing happens.
    Of course, there are much more transcripts with determined strand (468,928).
    Have you ever had this kind of situation?

    Thanks in advance!
    HJ.

  • #2
    Guys, please ignore this question.
    It's my stupid mistake.

    Now I want to delete this, but couldn't find the way.

    Comment


    • #3
      Originally posted by thejustpark View Post
      Guys, please ignore this question.
      It's my stupid mistake.

      Now I want to delete this, but couldn't find the way.
      You should be able to 'edit' your post and then a 'delete' button should be available.

      Comment

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