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  • dpryan
    Devon Ryan
    • Jul 2011
    • 3478

    #16
    If you do happen to perform such a comparison, please do post a link to it here and/or on biostars, since I expect many people would find it interesting.

    Comment

    • mbblack
      Senior Member
      • Aug 2009
      • 245

      #17
      Originally posted by Zimbobo View Post
      Hello,

      does anyone know of any software that produces simulated RNA-Seq data. I am interested in questions like how many reads are needed for a good assembly with velvet for example, what read errors produce which problems in the assembly. Thanks in advance for any pointers.
      Why not download a real data set from NCBI and then randomly sample from that to derive pseudo-data sets of varying read depths? That way you would have an realistic baseline to compare to.
      Michael Black, Ph.D.
      ScitoVation LLC. RTP, N.C.

      Comment

      • dpryan
        Devon Ryan
        • Jul 2011
        • 3478

        #18
        Originally posted by mbblack View Post
        Why not download a real data set from NCBI and then randomly sample from that to derive pseudo-data sets of varying read depths? That way you would have an realistic baseline to compare to.
        Note that the person you're replying to posted that ~4 years ago...

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