ArticleeLife2020
A community-maintained standard library of population genetic models.
Article in eLife, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 152 papers.
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Who cites it
152 citing papers in PubMed.
- Allelic gene conversion softens selective sweeps.Genetics · 2026Article
- The distribution of fitness effects of nonsynonymous mutations varies phylogenetically across animals.PLoS biology · 2026Article
- What has population genomics told us about the dynamics of selection and plant adaptation?Molecular biology and evolution · 2026Review
- ARGformer: learning on ancestral recombination graphs with transformers.Bioinformatics (Oxford, England) · 2026Article
- The rights and wrongs of rescaling in population genetics simulations.PLoS genetics · 2026Review
- Neural posterior estimation for population genetics.Genetics · 2026Article
- On the use of generative models for demographic inference in malaria vectors from genomic data.G3 (Bethesda, Md.) · 2026Article
- Local ancestry inference with poorly-matched reference panels.PLoS genetics · 2026Article
- Popformer: Learning general signatures of positive selection with a self-supervised transformer.PLoS computational biology · 2026Article
- CoalMiner: a coalescent model generator forbioRxiv : the preprint server for biology · 2026Article
- From Nuisance to Signal: Leveraging Close Relatives in Biobank-Scale Demographic Inference.bioRxiv : the preprint server for biology · 2026Article
- Long-term isolation and archaic introgression shape functional genetic variation in Near Oceania.Science (New York, N.Y.) · 2026Article
- Pervasive cryptic selection in the human noncoding genome.bioRxiv : the preprint server for biology · 2026Article
- Recent population history in Swedish cattle breeds.Genetics, selection, evolution : GSE · 2026Article
- Fast pairwise coalescence enables gene-resolution scans for recent selection in diverse human populations.bioRxiv : the preprint server for biology · 2026Article
- Observational epidemiological studies can mitigate genetic confounding with a genetic relatedness matrix.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Allele frequency patterns of 78,122,254 SNPs illuminate diverse possible evolutionary trajectories of human populations.Scientific reports · 2026Article
- Highly efficient genotype compression leveraging genealogical relatedness.bioRxiv : the preprint server for biology · 2026Article
- Ubiquitous impact of natural selection on nucleotide diversity in 178 species of primates.Genome biology · 2026Article
- Coalescence and translation: A language model for population genetics.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
92 more citing papers are in PubMed but not listed here.
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29 authors.
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Abstract
The explosion in population genomic data demands ever more complex modes of analysis, and increasingly, these analyses depend on sophisticated simulations. Recent advances in population genetic simulation have made it possible to simulate large and complex models, but specifying such models for a particular simulation engine remains a difficult and error-prone task. Computational genetics researchers currently re-implement simulation models independently, leading to inconsistency and duplication of effort. This situation presents a major barrier to empirical researchers seeking to use simulations for power analyses of upcoming studies or sanity checks on existing genomic data. Population genetics, as a field, also lacks standard benchmarks by which new tools for inference might be measured. Here, we describe a new resource, stdpopsim, that attempts to rectify this situation. Stdpopsim is a community-driven open source project, which provides easy access to a growing catalog of published simulation models from a range of organisms and supports multiple simulation engine backends. This resource is available as a well-documented python library with a simple command-line interface. We share some examples demonstrating how stdpopsim can be used to systematically compare demographic inference methods, and we encourage a broader community of developers to contribute to this growing resource.
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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.