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  • k-gun12
    Member
    • Feb 2010
    • 56
    #1

    Fragment an assembly for later overlap

    Can anyone recommend a tool to fragment an assembly into smaller overlapping reads or contigs? I have some assembled illumina data with larger contigs I want to break down into smaller <2kb contigs to feed to an overlapper w/ other data.

    Thanks!
    Tags: None
    • k-gun12
      Member
      • Feb 2010
      • 56
      #2
      Addendum: I see fasta2frag.tcl in mira does this...

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        • natstreet
          Member
          • Nov 2009
          • 83
          #3
          I'm using fastaoverlap from exonerate to do this.

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