treestructure: an R package to detect population structure in phylogenetic trees.

Fabrícia F Nascimento, Vinicius B Franceschi, Erik M Volz

Abstract read

In one paragraph

Article in Bioinformatics (Oxford, England), 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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0citing papers in PubMed

–field-weighted citation impact

1 · What the graph read from it

What it found

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2 · The registry

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3 · Its place in the literature

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0 citing papers in PubMed.

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4 · The record

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5 · Who and what money

Authors and funding

3 authors.

Fabrícia F NascimentoMRC Centre for Global Infectious Disease Analysis, Department of Infectious Disease Epidemiology, School of Public Health, Imperial College London, London, W12 0BZ, United Kingdom.ORCID 0000-0001-9426-6835

Vinicius B FranceschiMRC Centre for Global Infectious Disease Analysis, Department of Infectious Disease Epidemiology, School of Public Health, Imperial College London, London, W12 0BZ, United Kingdom.ORCID 0000-0002-0006-9337

Erik M VolzMRC Centre for Global Infectious Disease Analysis, Department of Infectious Disease Epidemiology, School of Public Health, Imperial College London, London, W12 0BZ, United Kingdom.ORCID 0000-0001-6268-8937

Funding

CARAA 5126118Population genomic analysis of HIV transmission fitnessUK Health Security Agency 104683EDWellcome Trust Investigator 220885/Z/20/Z

6 · The paper itself

Abstract

motivationHow population structure can shape genetic diversity is a longstanding problem in population genetics. While the use of geographic locations, when available, can help answer some of these questions, it is still difficult to determine population structure when such metadata are not available or when the potential population structure is not easily observed. Here, we present an updated version of treestructure, an R package that implements a statistical test based on coalescent theory to detect unobserved population structure in a time-scaled phylogenetic tree. AVAILABILITY: treestructure is available at CRAN at https://cloud.r-project.org/web/packages/treestructure/ and at https://emvolz-phylodynamics.github.io/treestructure/.

Indexed as

Genetics, PopulationPhylogenySoftwareGenetic Variation

Identifiers

PMID42024618

DOI10.1093/bioinformatics/btag195

PMCPMC13171169

What OpenQuestion holds

Textmetadata

LicenceCC BY

Read underepoch 390

Registered trials

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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.