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I am working on success rate of DNA barcoding in identification of species using distance and tree based methods.

Regarding distance based method, I have used Adhoc and species identifier and confirmed species identification using best closest match criteria (BCM).

Please suggest program/software/method for tree based identification (using NJ, parsimony, bayes), exhibiting clustering (number of clusters formed for particular species) that will suggest singleton (=Ambigious) species.

(For more details: Attached image) (Please Note: It is not possible to do it manually as iam having >4000 specimens)

Answers detailing methods or softwares appereciated! Thank you!

enter image description here

Rahul
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  • Are you searching for something like this: http://en.wikipedia.org/wiki/List_of_phylogenetics_software

    this post is some what off topic.

     – Devashish Das Jul 15 '14 at 05:56
  • @Devashish Das, thank you for your reply, to make it more clear, ive attached image. Pls have a look, keep posting. – Rahul Jul 15 '14 at 06:13
  • You can try PHYLIP and ClustalW. You can run them from commandline and this can be automated. – WYSIWYG Jul 18 '14 at 12:53

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