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Efficient pedigree recording for fast population genetics simulation

Abstract:

In this paper we describe how to efficiently record the entire genetic history of a population in forwards-time, individual-based population genetics simulations with arbitrary breeding models, population structure and demography. This approach dramatically reduces the computational burden of tracking individual genomes by allowing us to simulate only those loci that may affect reproduction (those having non-neutral variants). The genetic history of the population is recorded as a succinct tr...

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Publication status:
Published
Peer review status:
Peer reviewed
Version:
Publisher's version

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Publisher copy:
10.1371/journal.pcbi.1006581

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Institution:
University of Oxford
Division:
Medical Sciences Division
Department:
NDM
Subgroup:
BDI-NDM
Role:
Author
ORCID:
0000-0002-7894-5253
More by this author
Role:
Author
ORCID:
0000-0003-0743-4445
More by this author
Role:
Author
ORCID:
0000-0002-1841-4768
More by this author
Role:
Author
ORCID:
0000-0002-9459-6866
Sloan Foundation More from this funder
National Science Foundation More from this funder
United States Fish and Wildlife Service More from this funder
Publisher:
Public Library of Science Publisher's website
Journal:
PLoS Computational Biology Journal website
Volume:
14
Issue:
11
Pages:
e1006581
Publication date:
2018-10-08
Acceptance date:
2018-11-01
DOI:
EISSN:
1553-7358
ISSN:
1553-734X
Pubs id:
pubs:936582
URN:
uri:51b6a415-fe41-4375-bb74-d2a5338e455a
UUID:
uuid:51b6a415-fe41-4375-bb74-d2a5338e455a
Local pid:
pubs:936582
Language:
English
Keywords:

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