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Updated: May 3, 2026

A Practical Guide to Phylogenetics for Nonexperts
Published on: February 5, 2014
jmodeltest.org: selection of nucleotide substitution models on the cloud
Jose Manuel Santorum1, Diego Darriba, Guillermo L Taboada
1Department of Electronics and Systems, University of A Coruña, 15071 A Coruña and Department of Biochemistry, Genetics and Immunology, University of Vigo, 36201 Vigo, Spain.
jmodeltest.org provides a web server for executing jModelTest 2 (jMT2), simplifying phylogenetic analysis model selection. This tool enhances accessibility for researchers without High Performance Computing access, reducing analysis time.
Area of Science:
- Bioinformatics
- Computational Biology
- Evolutionary Biology
Background:
- Model selection for nucleotide substitution is crucial in phylogenetic analysis.
- jModelTest 2 (jMT2) is a popular tool but requires High Performance Computing (HPC) access and technical expertise.
- These requirements limit accessibility for many researchers, especially with large datasets.
Purpose of the Study:
- To present jmodeltest.org, a novel web server for executing jModelTest 2.
- To provide a user-friendly platform for phylogenetic model selection, accessible to a wider range of users.
- To overcome the computational and accessibility barriers associated with traditional jMT2 usage.
Main Methods:
- Development of a web server (jmodeltest.org) for transparent execution of jModelTest 2.
- Facilitation of jMT2 analysis across diverse platforms without user-side installation or configuration.
- Integration of jMT2 execution into a web-based interface.
Main Results:
- jmodeltest.org offers straightforward execution of jMT2, eliminating configuration issues.
- The web server significantly reduces the time required for phylogenetic model selection analyses.
- Increased accessibility to jMT2 for researchers lacking HPC resources.
Conclusions:
- jmodeltest.org democratizes access to advanced phylogenetic model selection tools.
- The web server streamlines bioinformatics workflows, making complex analyses more manageable.
- This platform supports broader adoption of robust phylogenetic methods in research.
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