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  • crayfish
    Junior Member
    • May 2012
    • 7
    #1

    Call SNP

    Hi,everyone, I have two samples (A and B) they are the same species with different phenotype, I got 454 transcriptome data for both of them, I want to detect the SNP between A and B, means I want to find some SNPs that can distinguish A and B, I do not have reference genome, so I use the de novo transcriptome assemble as reference. so can you suggest some software that i can use?

    thank you
    Tags: None
  • nucleus
    Junior Member
    • May 2013
    • 7
    #2
    Take a look at Cortex (http://cortexassembler.sourceforge.n...ortex_var.html), I think it can be used without a reference,

    Comment

    • crayfish
      Junior Member
      • May 2012
      • 7
      #3
      Thank you, i will try it

      Comment

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