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Efficient coalescent simulation and genealogical analysis for large sample sizes

Abstract:

A central challenge in the analysis of genetic variation is to provide realistic genome simulation across millions of samples. Present day coalescent simulations do not scale well, or use approximations that fail to capture important long-range linkage properties. Analysing the results of simulations also presents a substantial challenge, as current methods to store genealogies consume a great deal of space, are slow to parse and do not take advantage of shared structure in correlated trees. ...

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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.1004842

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Institution:
University of Oxford
Department:
Oxford, MSD, NDM, Human Genetics Wt Centre
Role:
Author
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Institution:
University of Oxford
Department:
Oxford, MPLS, Statistics
Role:
Author
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Institution:
University of Oxford
Department:
Oxford, Li Ka Shing Centre for Health Information and Discovery
Role:
Author
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Grant:
090532/Z/09/Z; 100956/Z/13/Z
Publisher:
Public Library of Science Publisher's website
Journal:
PLoS Computational Biology Journal website
Publication date:
2015-05-04
DOI:
EISSN:
1553-7358
ISSN:
1553-734X
URN:
uuid:480c3f66-2b87-4903-8eee-1a2e354e26bb
Source identifiers:
612546
Local pid:
pubs:612546

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