SPREAD 4: online visualisation of pathogen phylogeographic reconstructions.
BEAST
Bayesian inference
phylogeography
viral spread
visualisation
Journal
Virus evolution
ISSN: 2057-1577
Titre abrégé: Virus Evol
Pays: England
ID NLM: 101664675
Informations de publication
Date de publication:
2022
2022
Historique:
received:
29
07
2022
accepted:
16
09
2022
entrez:
3
11
2022
pubmed:
4
11
2022
medline:
4
11
2022
Statut:
epublish
Résumé
Phylogeographic analyses aim to extract information about pathogen spread from genomic data, and visualising spatio-temporal reconstructions is a key aspect of this process. Here we present SPREAD 4, a feature-rich web-based application that visualises estimates of pathogen dispersal resulting from Bayesian phylogeographic inference using BEAST on a geographic map, offering zoom-and-filter functionality and smooth animation over time. SPREAD 4 takes as input phylogenies with both discrete and continuous location annotation and offers customised visualisation as well as generation of publication-ready figures. SPREAD 4 now features account-based storage and easy sharing of visualisations by means of unique web addresses. SPREAD 4 is intuitive to use and is available online at https://spreadviz.org, with an accompanying web page containing answers to frequently asked questions at https://beast.community/spread4.
Identifiants
pubmed: 36325034
doi: 10.1093/ve/veac088
pii: veac088
pmc: PMC9615431
doi:
Types de publication
Journal Article
Langues
eng
Pagination
veac088Subventions
Organisme : NIAID NIH HHS
ID : R01 AI153044
Pays : United States
Informations de copyright
© The Author(s) 2022. Published by Oxford University Press.
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