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  • vanillasky
    Member
    • Mar 2014
    • 42
    #1

    Analyzing metagenomic contigs

    I have just finished running an assembly with Metavelvet and now have the contig file. Since I am new to the assembly process I wanted to ask what programs can be used next to analyze these contigs?
    Tags: None
    • cliffbeall
      Senior Member
      • Jan 2010
      • 144
      #2
      MG-RAST or IMG-MER, maybe?

      That's assuming you want to do annotation and you don't mind web-based tools.
      Last edited by cliffbeall; 07-02-2014, 07:21 AM. Reason: clarity

        Comment

        • vanillasky
          Member
          • Mar 2014
          • 42
          #3
          What other options are there besides the web based tools? Are the stand alone programs more advantageous?

            Comment

            • Brian Bushnell
              Super Moderator
              • Jan 2014
              • 2709
              #4
              What do you want to analyze about them? I like Quast, which is not web-based.

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