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  • MikeyG
    Junior Member
    • Jun 2011
    • 4
    #1

    Transcript quantitation without a genome?

    Hi all,
    Does anybody know of a way to effectively quantitate/map short reads without a genome sequence? I'm working with an unsequenced organism, and have performed de novo sequencing/assembly, but the quant does not seem trivial without a genome to map to. Any advice here would be greatly appreciated.
    Thanks!
    Mikey
    Tags: None
    • petang
      Member
      • Nov 2008
      • 13
      #2
      The only option is to use the RPKM (reads counts per kb per million) for each assembled contig.

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