ArticleSystematic biology2025
How to Validate a Bayesian Evolutionary Model.
Article in Systematic biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
14 citing papers in PubMed.
- Article
- Estimating Divergence Times and Diversification Rates with the Unresolved Fossilized Birth-Death Process.bioRxiv : the preprint server for biology · 2026Article
- Inferring Branch-Specific Rates of Lineage Diversification Under the Birth-Death-Shift Process.Systematic biology · 2026Article
- Bayesian credible sets for phylogenetic tree topologies with applications to coverage analysis and cross-model comparison.Molecular biology and evolution · 2026Article
- SciPhy: A Bayesian phylogenetic framework using sequential genetic lineage tracing data.Nature communications · 2026Article
- The Phylodynamic Threshold of Measurably Evolving Populations.Molecular biology and evolution · 2026Article
- Testing the validity and adequacy of linguistic phylogenetic analyses.PLoS computational biology · 2026Article
- Age-dependent Phylodynamics with Application to Single-cell Lineage Trees.Molecular biology and evolution · 2026Article
- Article
- Reduced Amino Acid Substitution Matrices Find Traces of Ancient Coding Alphabets in Modern Day Proteins.Molecular biology and evolution · 2025Article
- Evolution is coupled with branching across many granularities of life.Proceedings. Biological sciences · 2025Article
- Accurate Bayesian phylogenetic point estimation using a tree distribution parameterized by clade probabilities.PLoS computational biology · 2025Article
- An independent base composition of each rate class for improved likelihood-based phylogeny estimation; the 5rf model.bioRxiv : the preprint server for biology · 2024Article
- Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
Biology has become a highly mathematical discipline in which probabilistic models play a central role. As a result, research in the biological sciences is now dependent on computational tools capable of carrying out complex analyses. These tools must be validated before they can be used, but what is understood as validation varies widely among methodological contributions. This may be a consequence of the still embryonic stage of the literature on statistical software validation for computational biology. Our manuscript aims to advance this literature. Here, we describe, illustrate, and introduce new good practices for assessing the correctness of a model implementation with an emphasis on Bayesian methods. We also introduce a suite of functionalities for automating validation protocols. It is our hope that the guidelines presented here help sharpen the focus of discussions on (as well as elevate) expected standards of statistical software for biology.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.