Excoffier, Laurent; Marchi, Nina; Marques, David Alexander; Matthey-Doret, Remi; Gouy, Alexandre; Sousa, Vitor C. (2021). fastsimcoal2 : demographic inference under complex evolutionary scenarios. Bioinformatics, 37(24), pp. 4882-4885. Oxford University Press 10.1093/bioinformatics/btab468
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Excoffier_et_al._2021_Bioinformatics_fastsimcoal2.pdf - Published Version Available under License Creative Commons: Attribution-Noncommercial (CC-BY-NC). Download (1MB) | Preview |
Motivation: fastsimcoal2 extends fastsimcoal, a continuous time coalescent-based genetic simulation program, by enabling the estimation of demographic parameters under very complex scenarios from the site frequency spectrum under a maximum-likelihood framework.
Results: Other improvements include multi-threading, handling of population inbreeding, extended input file syntax facilitating the description of complex demographic scenarios, and more efficient simulations of sparsely structured populations and of large chromosomes.
Availability and implementation: fastsimcoal2 is freely available on http://cmpg.unibe.ch/software/fastsimcoal2/. It includes console versions for Linux, Windows and MacOS, additional scripts for the analysis and visualization of simulated and estimated scenarios, as well as a detailed documentation and ready-to-use examples.
Item Type: |
Journal Article (Original Article) |
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Division/Institute: |
08 Faculty of Science > Department of Biology > Institute of Ecology and Evolution (IEE) 08 Faculty of Science > Department of Biology > Institute of Ecology and Evolution (IEE) > Population Genetics 08 Faculty of Science > Department of Biology > Institute of Ecology and Evolution (IEE) > Aquatic Ecology |
UniBE Contributor: |
Excoffier, Laurent, Marchi, Nina, Marques, David Alexander, Gouy, Alexandre Pierre |
Subjects: |
500 Science > 570 Life sciences; biology |
ISSN: |
1367-4803 |
Publisher: |
Oxford University Press |
Language: |
English |
Submitter: |
Marcel Häsler |
Date Deposited: |
11 Aug 2021 11:00 |
Last Modified: |
02 Mar 2023 23:35 |
Publisher DOI: |
10.1093/bioinformatics/btab468 |
BORIS DOI: |
10.48350/157985 |
URI: |
https://boris.unibe.ch/id/eprint/157985 |
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