ArticleGenetics2016
Estimating the Number of Subpopulations (K) in Structured Populations.
Article in Genetics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers.
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Who cites it
45 citing papers in PubMed.
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- Genomic Islands of Divergence Between Drosophila yakuba Subspecies are Predominantly Driven by Chromosomal Inversions and the Recombination Landscape.Molecular ecology · 2025Article
- Candidate gene analysis of rice grain shape based on genome-wide association study.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Impact of pathogen genetics on clinical phenotypes in a population of Talaromyces marneffei from Vietnam.Genetics · 2023Article
- The Conservation Genetics ofPlants (Basel, Switzerland) · 2023Article
- Multiplexed ddPCR-amplicon sequencing reveals isolated Plasmodium falciparum populations amenable to local elimination in Zanzibar, Tanzania.Nature communications · 2023Article
- Model selection and robust inference of mutational signatures using Negative Binomial non-negative matrix factorization.BMC bioinformatics · 2023Article
- Implementing landscape genetics in molecular epidemiology to determine drivers of vector-borne disease: A malaria case study.Molecular ecology · 2023Article
- Exploring how space, time, and sampling impact our ability to measure genetic structure acrossFrontiers in epidemiology · 2023Article
- An isolated population reveals greater genetic structuring of the Australian dingo.Scientific reports · 2022Article
- Global genetic diversity status and trends: towards a suite of Essential Biodiversity Variables (EBVs) for genetic composition.Biological reviews of the Cambridge Philosophical Society · 2022Review
- Population genetic structure ofFrontiers in plant science · 2022Article
- Population structure inPeerJ · 2022Article
- An integrative genomic and phenomic analysis to investigate the nature of plant species in Escallonia (Escalloniaceae).Scientific reports · 2021Article
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A key quantity in the analysis of structured populations is the parameter K, which describes the number of subpopulations that make up the total population. Inference of K ideally proceeds via the model evidence, which is equivalent to the likelihood of the model. However, the evidence in favor of a particular value of K cannot usually be computed exactly, and instead programs such as Structure make use of heuristic estimators to approximate this quantity. We show-using simulated data sets small enough that the true evidence can be computed exactly-that these heuristics often fail to estimate the true evidence and that this can lead to incorrect conclusions about K Our proposed solution is to use thermodynamic integration (TI) to estimate the model evidence. After outlining the TI methodology we demonstrate the effectiveness of this approach, using a range of simulated data sets. We find that TI can be used to obtain estimates of the model evidence that are more accurate and precise than those based on heuristics. Furthermore, estimates of K based on these values are found to be more reliable than those based on a suite of model comparison statistics. Finally, we test our solution in a reanalysis of a white-footed mouse data set. The TI methodology is implemented for models both with and without admixture in the software MavericK1.0.
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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.