popart: full‐feature software for haplotype network construction
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Summary
Popart is presented, an integrated software package that provides a comprehensive implementation of haplotype network methods, phylogeographic visualisation tools and standard statistical tests, together with publication‐ready figure production.
- Type
- article
- Published
- 2015-09-01
- Cited by
- 5,904
- References
- 31
- Access
- Open access
- OpenAlex
- https://openalex.org/W1946252112
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:83961323
Keywords
Haplotype, Software, Computer science, Visualization, R package
References
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- Using ancient DNA to study the origins and dispersal of ancestral Polynesian chickens across the Pacific
- Ancient voyaging and Polynesian origins.
- Distance Realization Problems with Applications to Internet Tomography
- Median-joining networks for inferring intraspecific phylogenies.
- The neighbor-joining method: a new method for reconstructing phylogenetic trees.
- Site‐specific genetic divergence in parallel hybrid zones suggests nonallopatric evolution of reproductive barriers
- NEXUS: an extensible file format for systematic information.
- A Bayesian approach to phylogeographic clustering
- Arlequin (version 3.0): An integrated software package for population genetics data analysis
- pegas: an R package for population genetics with an integrated-modular approach
- Bridging near and remote Oceania: mtDNA and NRY variation in the Solomon Islands.
- HapStar: automated haplotype network layout and visualization
- Statistical method for testing the neutral mutation hypothesis by DNA polymorphism.
- TCS: estimating gene genealogies
Cited by
- Spatial pattern of genetic diversity and selection in the MHC class II DRB of three Neotropical bat species
- Complex selection on a regulator of social cognition: Evidence of balancing selection, regulatory interactions and population differentiation in the prairie vole Avpr1a locus
- A DNA barcode library for ground beetles of Germany: the genus Amara Bonelli, 1810 (Insecta, Coleoptera, Carabidae)
- Late Pleistocene genetic diversification and demographic expansion in the widely distributed neotropical ant Neoponera villosa (Ponerinae)
- Molecular resolution to a morphological controversy: The case of North American fossil muskoxen Bootherium and Symbos.
- Subdividing the Common Intertidal Hermit Crab Pagurus minutus Hess, 1865 (Decapoda: Anomura: Paguridae) Based on Molecular, Morphological and Coloration Analyses.
- Phylogenetic relationships among hadal amphipods of the Superfamily Lysianassoidea: Implications for taxonomy and biogeography
- Stop and Go – Waves of Tarsier Dispersal Mirror the Genesis of Sulawesi Island
- Evidence for Bergmann's Rule and Not Allopatric Subspeciation in the Threatened Kaka (Nestor meridionalis).
- Barcoding gap, but no support for cryptic speciation in the earthworm Aporrectodea longa (Clitellata: Lumbricidae)
- The Antarctic Circumpolar Current as a diversification trigger for deep-sea octocorals
- Fitchi: haplotype genealogy graphs based on the Fitch algorithm
- Delineation of the population genetic structure of Culicoides imicola in East and South Africa
- Continental Refugium in the Mongolian Plateau during Quaternary Glacial Oscillations: Phylogeography and Niche Modelling of the Endemic Desert Hamster, Phodopus roborovskii
- Identification of haplotypes at the Rsv4 genomic region in soybean associated with durable resistance to soybean mosaic virus
- Provenance of Ichthyosaura alpestris (Caudata: Salamandridae) introductions to France and New Zealand assessed by mitochondrial DNA analysis
- Contrasting evolutionary patterns of 28S and ITS rRNA genes reveal high intragenomic variation in Cephalenchus (Nematoda): Implications for species delimitation.
- Little or no gene flow despite F1 hybrids at two interspecific contact zones
- Earthworm ecology affects the population structure of their Verminephrobacter symbionts.
- Genetic diversity and gene flow in a rare New Zealand skink despite fragmented habitat in a volcanic landscape
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