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  • sumfry
    Junior Member
    • Jul 2010
    • 1
    #1

    cufflinks --reference-seq qusestion

    Hi:

    Have anybody used this option? What kind of reference sequence is supposed to be used here? I looked up the Roberts et al 2011 paper and can not find a clue.

    Is it supposed to be the genomic sequence of the species being studied?

    Frank
    Tags: None
    • adarob
      Member
      • Jul 2010
      • 71
      #2
      Yes. It should be the fasta file you mapped your reads to.

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