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  • Software for comparative genomics of prokaryotes

    Dear people,

    can somebody suggest some software tool for comparative genomics of bacteria? It would be great to have a standalone software that is not web-based. I'm looking for a tool that is able draw synteny plots, can take the annotation of a reference genome and apply it to the new assembled sequence.
    Additional it would be great to have a software that can connect the synteny with the sequence (like the Synmap and Gevo).

    Maybe some can help!

    Many thanks in advance!

    Best regards,
    p

  • #2
    What software are you using, if any?

    I am looking for the different options that there are for doing the sames tasks that you mentioned in your question. Could you or anyone help me improving the list that I have so far?

    MUMmer http://mummer.sourceforge.net/
    CoGe http://genomevolution.org/CoGe/index.pl
    Vista tools http://genome.lbl.gov/vista/index.shtml

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