BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis.
Journal
PLoS computational biology
ISSN: 1553-7358
Titre abrégé: PLoS Comput Biol
Pays: United States
ID NLM: 101238922
Informations de publication
Date de publication:
04 2019
04 2019
Historique:
received:
14
11
2018
accepted:
04
02
2019
revised:
18
04
2019
pubmed:
9
4
2019
medline:
29
5
2019
entrez:
9
4
2019
Statut:
epublish
Résumé
Elaboration of Bayesian phylogenetic inference methods has continued at pace in recent years with major new advances in nearly all aspects of the joint modelling of evolutionary data. It is increasingly appreciated that some evolutionary questions can only be adequately answered by combining evidence from multiple independent sources of data, including genome sequences, sampling dates, phenotypic data, radiocarbon dates, fossil occurrences, and biogeographic range information among others. Including all relevant data into a single joint model is very challenging both conceptually and computationally. Advanced computational software packages that allow robust development of compatible (sub-)models which can be composed into a full model hierarchy have played a key role in these developments. Developing such software frameworks is increasingly a major scientific activity in its own right, and comes with specific challenges, from practical software design, development and engineering challenges to statistical and conceptual modelling challenges. BEAST 2 is one such computational software platform, and was first announced over 4 years ago. Here we describe a series of major new developments in the BEAST 2 core platform and model hierarchy that have occurred since the first release of the software, culminating in the recent 2.5 release.
Identifiants
pubmed: 30958812
doi: 10.1371/journal.pcbi.1006650
pii: PCOMPBIOL-D-18-01929
pmc: PMC6472827
doi:
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Validation Study
Langues
eng
Sous-ensembles de citation
IM
Pagination
e1006650Subventions
Organisme : NIGMS NIH HHS
ID : U01 GM110749
Pays : United States
Déclaration de conflit d'intérêts
The authors have declared that no competing interests exist.
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