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!