Zombi: a phylogenetic simulator of trees, genomes and sequences that accounts for dead linages.
Journal
Bioinformatics (Oxford, England)
ISSN: 1367-4811
Titre abrégé: Bioinformatics
Pays: England
ID NLM: 9808944
Informations de publication
Date de publication:
15 02 2020
15 02 2020
Historique:
received:
11
04
2019
revised:
09
09
2019
accepted:
26
09
2019
pubmed:
1
10
2019
medline:
18
9
2020
entrez:
1
10
2019
Statut:
ppublish
Résumé
Here we present Zombi, a tool to simulate the evolution of species, genomes and sequences in silico, that considers for the first time the evolution of genomes in extinct lineages. It also incorporates various features that have not to date been combined in a single simulator, such as the possibility of generating species trees with a pre-defined variation of speciation and extinction rates through time, simulating explicitly intergenic sequences of variable length and outputting gene tree-species tree reconciliations. Source code and manual are freely available in https://github.com/AADavin/ZOMBI/. Supplementary data are available at Bioinformatics online.
Identifiants
pubmed: 31566657
pii: 5578480
doi: 10.1093/bioinformatics/btz710
pmc: PMC7031779
doi:
Substances chimiques
DNA, Intergenic
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
1286-1288Informations de copyright
© The Author(s) 2019. Published by Oxford University Press.
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