snap-mcmc

SNP and AFLP data analysis: full coalescent analysis without those pesky gene trees.

Implementation of an MCMC based method for inferring species (population) trees and demographics from unlinked SNP data.

Full description of method is in

Bryant, D., Bouckaert, R., Felsenstein, J., Rosenberg, N., RoyChoudhury, A. Inferring species trees directly from biallelic genetic markers: bypassing gene trees in a full coalescent analysis. Molecular Biology and Evolution (in press)

This code is an add-on to beast2 http://code.google.com/p/beast2

More information at http://snapp.otago.ac.nz/

Project Information

Labels:
SNP AFLP Java coalescent