iiinova — where your digital self keeps evolving

Reposted by Muthukumaran Panchaksaram, PhD

Alexei Drummond @alexeidrummond.bsky.social · 28/07/2026

Get excited :) PhyloSpec is coming! A shared standard + modelling language for phylogenetic models. Write a model once, run it across engines like BEAST X, BEAST 2.8 & RevBayes. Easy and reproducible. Built by @tochsner.bsky.social & collaborators (ETH Zürich, Auckland, LMU). phylospec.com

phylospec.com

PhyloSpec

A standardized way to describe phylogenetic model components, common assumptions, and best practices in the field of phylogenetics.

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Reposted by Muthukumaran Panchaksaram, PhD

Sishuo Wang @sishuowang.bsky.social · 12/03/2026

very happy to have this work published in mbe @molbioevol.bsky.social can now use phyloHessian to get a (hopefully) improved div time & subs rate estimate, particularly for deep-time or fast‑evolving lineages github.com/evolbeginner... #julialang #iqtree #mcmctree #molecularclock

github.com

GitHub - evolbeginner/phyloHessianWrapper

Contribute to evolbeginner/phyloHessianWrapper development by creating an account on GitHub.

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Reposted by Muthukumaran Panchaksaram, PhD

Mario dos Reis @mariodosreis.bsky.social · 06/05/2025

Frustrated that MCMCtree does not have complex substitution models? The IQ-tree team has now developed IQ2MC, an interface for seamless integration of IQ-tree's substitution models with MCMCtree's fast Bayesian pipeline for clock dating. Read the preprint here: ecoevorxiv.org/repository/v...

ecoevorxiv.org

IQ2MC: A New Framework to Infer Phylogenetic Time Trees Using IQ-TREE 3 and MCMCTree with Mixture Models

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Muthukumaran Panchaksaram, PhD @muthubioinfo.bsky.social · 20/03/2025

Happy to share that my PhD paper published in Systematic Biology. My paper explores the #Asymptotictheory of Bayesian rate model selection and explore how misspecified calibrations can affect this. Also test rate model selection with large #Phylogenomes Link below: academic.oup.com/sysbio/advan...

academic.oup.com

Bayesian Selection of Relaxed-Clock Models: Distinguishing between Independent and Autocorrelated Rates

Abstract. In Bayesian molecular-clock dating of species divergences, rate models are used to construct the prior on the molecular evolutionary rates for br

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Reposted by Muthukumaran Panchaksaram, PhD

Nature @nature.com · 26/01/2025

More than 40% of postdoctoral researchers leave academia, according to a study of some 45,500 researchers’ careers go.nature.com/3Ej9RxA

go.nature.com

More than 40% of postdocs leave academia, study reveals

Nature - Publishing highly cited papers helps postdoctoral researchers to land a faculty job.

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Reposted by Muthukumaran Panchaksaram, PhD

Mario dos Reis @mariodosreis.bsky.social · 06/01/2025

A reminder that we have two open PhD projects on Bayesian phylogenetics in the lab: One with the new TREE Doctoral Landscape Awards: www.trees-dla.ac.uk/projects/int... (deadline 20th Jan) And another with CSC: www.findaphd.com/phds/project... (deadline 29th Jan)

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