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Article

PopGenome: an efficient Swiss army knife for population genomic analyses in R.

Molecular biology and evolution - 1 Jul 2014

Pfeifer Bastian, Wittelsbürger Ulrich, Ramos-Onsins Sebastian E, Lercher Martin J

Abstract excerpt

Although many computer programs can perform population genetics calculations, they are typically limited in the analyses and data input formats they offer; few applications can process the large data sets produced by whole-genome resequencing projects. Furthermore, there is no coherent framework for the easy integration of new statistics into existing pipelines, hindering the development and application of new...

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Identifiers

PMID: 24739305
DOI: 10.1093/molbev/msu136
PMCID: PMC4069620

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PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 7 Sept 2026. Manifest publication-graph-cohort-2026-09-08.1.

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PopGenome: an efficient Swiss army knife for population genomic analyses in R.PMID 24739305Read ↗

PopGLen-a Snakemake pipeline for performing population genomic analyses using genotype likelihood-based methods.Semantic proximity Read ↗

PopSc: Computing Toolkit for Basic Statistics of Molecular Population Genetics Simultaneously Implemented in Web-Based Calculator, Python and R.Semantic proximity Read ↗

PopFly: the Drosophila population genomics browser.Semantic proximity Read ↗

PGEToolbox: A Matlab toolbox for population genetics and evolution.Semantic proximity Read ↗

PoPoolation2: identifying differentiation between populations using sequencing of pooled DNA samples (Pool-Seq).Semantic proximity Read ↗

<i>PopGenPlayground:</i> a population genomics analysis pipelineSemantic proximity Read ↗

<i>tidypopgen</i> : Tidy Population Genetics in RSemantic proximity Read ↗

PopGenHelpR: An R Package to Streamline and Facilitate Informed Population Genomic Analyses and Visualization of Genetic Ancestry, Diversity and Differentiation.Semantic proximity Read ↗

PopHuman: the human population genomics browser.Semantic proximity Read ↗

PoPoolation DB: a user-friendly web-based database for the retrieval of natural polymorphisms in Drosophila.Semantic proximity Read ↗

PyPop: a mature open-source software pipeline for population genomics.Semantic proximity Read ↗

Stacks: an analysis tool set for population genomics.Semantic proximity Read ↗

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