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  • rdu
    Member
    • Aug 2010
    • 29

    #1

    BLAST output parsing in R?

    Is there a package, or some special way to parse BLAST output by programming in R? Thanks.
  • NicoBxl
    not just another member
    • Aug 2010
    • 264

    #2
    the easiest way is to produce a tabular output from blast (-m 8 param I think ) and then to read this output in R with the command

    var <- read.table(out.blast , sep="\t")

    Comment

    • sdarko
      Member
      • Apr 2009
      • 52

      #3
      Use "-outfmt 6" to get tabular output from blast.

      Sam

      Comment

      • rdu
        Member
        • Aug 2010
        • 29

        #4
        Got it, thank you!

        Comment

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