A Bayesian model test package for BEAST2. bModelTest can be used in any analysis where trees are estimated based on nucleotide sequences, such as multi-species coalescent analysis, various forms of phylogeographical analyses, sampled ancestor analysis, demographic reconstruction using coalescent, birth death skyline analysis, et cetera. The graphical use interface (GUI) support provided through BEAUti makes it easy to set up an analysis with the bModelTest site model. bModelTest allows estimation of the site model using a full Bayesian approach, without the need to rely on non-Bayesian tools for selecting the site model.

User report

0 user reviews

0 user reviews

No review has been posted.

bModelTest forum

No open topic.

bModelTest classification

bModelTest specifications

Software type:
Package
Restrictions to use:
None
License:
GNU Lesser General Public License version 3.0
Version:
1.0.0
Interface:
Graphical user interface
Programming languages:
Java
Computer skills:
Medium
Stability:
Stable
Source code URL:
https://github.com/BEAST2-Dev/bModelTest.git

Publications

  • (Bouckaert and Drummond, 2016) bModelTest: Bayesian phylogenetic site model averaging and model comparison. bioRxiv.
    DOI: 10.1101/020792

Credits

Institution(s)

Centre for Computational Evolution, University of Auckland, Auckland, New Zealand; Department of Computer Science, University of Auckland, Auckland, New Zealand; Max Planck Institute for the Science of Human History, Jena, Germany

Funding source(s)

This work was funded by a Rutherford fellowship from the Royal Society of New Zealand.

Related Phylogenetic inference tools

Most Recent Tools

Desktop app
TreeTime TreeTime

TreeTime

Provides routines for ancestral sequence reconstruction and the inference of…

Provides routines for ancestral sequence reconstruction and the inference of molecular-clock phylogenies. TreeTime is a Markov chain Monte Carlo (MCMC) framework for Bayesian phylogeny…

Desktop app
phyloSkeleton phyloSkeleton

phyloSkeleton

Selects the most representative organisms, following a set of simple rules…

Selects the most representative organisms, following a set of simple rules based on taxonomy and assembly quality. phyloSkeleton allows users to retrieve the genomes from public databases (NCBI,…

Desktop app
FastTree FastTree

FastTree

Constructs large phylogenies and estimates their reliability. FastTree uses…

Constructs large phylogenies and estimates their reliability. FastTree uses nearest-neighbor interchanges (NNIs), the minimum-evolution criterion, minimum-evolution subtree-pruning-regrafting (SPRs)…

Web app
Desktop app
System for Integrate… System for Integrate Genomic Resources and…

STINGRAY System for Integrate Genomic Resources and Analyses

Offers a complete annotation pipeline for integrating, analyzing, annotating…

Offers a complete annotation pipeline for integrating, analyzing, annotating and presenting genomic and expression data from sequencing platforms. STINGRAY offers to user a phylogenetic module that…

Most Popular Tools

PhyloPat PhyloPat

PhyloPat

Allows the complete Ensembl gene database to be queried using phylogenetic…

Allows the complete Ensembl gene database to be queried using phylogenetic patterns. PhyloPat offers the possibility of querying with binary phylogenetic patterns or regular expressions, or through a…

16 related tools

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.