SPREAD: spatial phylogenetic reconstruction of evolutionary dynamics
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Summary
The software maps phylogenies annotated with both discrete and continuous spatial information and can export high-dimensional posterior summaries to keyhole markup language (KML) for animation of the spatial diffusion through time in virtual globe software.
- Type
- article
- Published
- 2011-09-11
- Cited by
- 461
- References
- 12
- Access
- Open access
- OpenAlex
- https://openalex.org/W2105811945
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:13791421
Keywords
Computer science, Bayesian probability, Software, Source code, Data mining
References
- GenGIS: A geospatial information system for genomic data.
- Algorithm 531: Contour Plotting [J6]
- Bayesian Phylogeography Finds Its Roots
- Phylogeography takes a relaxed random walk in continuous space and time.
- Phylogeographic information systems: putting the geography into phylogeography
- The genomic and epidemiological dynamics of human influenza A virus
- Density Estimation
- Many-core algorithms for statistical phylogenetics
- BEAST (Bayesian Evolutionary Analysis by Sampling Trees)
Cited by
- Heteroploid Knautia drymeia includes K. gussonei and cannot be separated into diagnosable subspecies.
- Atypical Porcine Pestivirus as a Novel Type of Pestivirus in Pigs in China
- Die weltweite Ausbreitung und Evolution von Hepatitis B Virus Genotypen, Subgenotypen und Rekombinanten
- Population structure of Bactrocera dorsalis s.s., B. papayae and B. philippinensis (Diptera: Tephritidae) in southeast Asia: evidence for a single species hypothesis using mitochondrial DNA and wing-shape data
- Bayesian phylogeographic analyses clarify the origin of the HIV-1 subtype A variant circulating in former Soviet Union's countries.
- Spatio-temporal Dynamics of Foot-and-Mouth Disease Virus in South America
- Molecular phylogeography of canine distemper virus: Geographic origin and global spreading.
- Genotype-specific variation in West Nile virus dispersal in California
- Interglacial refugia preserved high genetic diversity of the Chinese mole shrew in the mountains of southwest China
- Biogeographic history and cryptic diversity of saxicolous Tropiduridae lizards endemic to the semiarid Caatinga
- Systematics, Biogeography, and Phylogeography of Thylamys Mouse Opossums, a Recent Radiation of Neotropical Marsupials
- Phylogeography of Avian influenza A H9N2 in China
- Diversification patterns in cosmopolitan earthworms: similar mode but different tempo.
- Cryptic lineages and diversification of an endemic anole lizard (Squamata, Dactyloidae) of the Cerrado hotspot.
- Contribution of Epidemiological Predictors in Unraveling the Phylogeographic History of HIV-1 Subtype C in Brazil
- Wild waterfowl migration and domestic duck density shape the epidemiology of highly pathogenic H5N8 influenza in the Republic of Korea
- Phylodynamic analysis of the canine distemper virus hemagglutinin gene
- Relaxed random walk model coupled with ecological niche modeling unravel the dispersal dynamics of a Neotropical savanna tree species in the deeper Quaternary
- Genetic diversity and evolutionary dynamics of Ebola virus in Sierra Leone
- Phylodynamic reconstruction of the spatiotemporal transmission and demographic history of coxsackievirus B2
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