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Start Your TrialExaBayes is a program for the Bayesian estimation of phylogeny. Bayesian inference of phylogeny is based upon a quantity called the posterior probability distribution of trees, which is the probability of a tree conditioned on the observations. The conditioning is accomplished using Bayes' theorem. The posterior probability distribution of trees is impossible to calculate analytically; instead, ExaBayes uses a simulation technique called Markov chain Monte Carlo (or MCMC) to approximate the posterior probabilities of trees.
ExaBayes is engineered for efficient Bayesian tree inference on data sets of almost arbitrary size. ExaBayes can conduct Bayesian analyses for the most widely used priors, models, and input data types. These comprise Dirichlet, exponential and uniform priors, the general time-reversible (GTR) model of nucleotide substitution (Tavaré 1986), the Γ model of rate heterogeneity (Yang 1994a), and unconstrained branch length sampling. For protein data, we offer 18 commonly used fixed-rate substitution matrices as well as a GTR model. We also implemented a comprehensive set of topological proposals that assure rapid convergence and adapted these for massively parallel execution.
ExaBayes home page here.
INPUT = dna or protein matrices in Nexus format
Simple Example of Run Input/Output
Input File Type | File Name |
input matrix file | exabayes_infile.phy |
partition file | exabayes_part.phy |
config file | exabayes_config.nex |
Output File Type | File Name |
log file | log.txt |
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