Computational Phylogenomics Lab @ ANU

Enable evolutionary research in the genomic era

Our mission

We develop and apply bioinformatic methods, models, and algorithms for phylogenetic inference from genomic data, with a recent focus on machine learning.
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News

Manyuan's thesis received Upper High Distinction and University Medal nomination
Hashara wins TALO Computational Biology Innovator Grant
Tracing Viruses and Evolution: Minh's Work Featured by ANU
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Software

Our flagship software IQ-TREE, the Eureka prize winner, has been used to investigate everything from the origin of Life on Earth to the virus causing COVID-19 pandemic.
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Join us

Our lab is growing! Current members are listed here
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Selected publications

  1. IQ-NET: Fast and Accurate Quartet Phylogenetic Inference Using Deep Learning Trained on Empirical DNA Alignments
    C. Yang, Z. Zhuang, P. Demotte, C.C. Dang, L.S. Vinh, B.Q. Minh, N. Ly-Trong
    Molecular Phylogenetics and Evolution (2026)

  2. piqtree: A Python Package for Seamless Phylogenetic Inference with IQ-TREE
    R.N. McArthur, T.K.F. Wong, Y. Lang, R.A. Morris, K. Caley, V. Mallawaarachchi, B.Q. Minh, G.A. Huttley
    Molecular Biology and Evolution 43:msag061 (2026)

  3. MixtureFinder: Estimating DNA mixture models for phylogenetic analyses
    H. Ren, T.K.F. Wong, B.Q. Minh, R. Lanfear
    Molecular Biology and Evolution 42:msae264 (2025)

  4. CMAPLE: Efficient phylogenetic inference in the pandemic era
    N. Ly-Trong, C. Bielow, N. De Maio, B.Q. Minh
    Molecular Biology and Evolution 41:msae134 (2024)

  5. AliSim-HPC: Parallel sequence simulator for phylogenetics
    N. Ly-Trong, G.M.J. Barca, B.Q. Minh
    Bioinformatics 39:btad540 (2023)

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© 2019-2023 Minh Bui Lab on Computational Phylogenomics @ School of Computing, Australian National University