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Estimating recombination rates from population genetic data.

Fearnhead, Paul and Donnelly, Peter (2001) Estimating recombination rates from population genetic data. Genetics, 159 (3). pp. 1299-1318. ISSN 0016-6731

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Abstract

We introduce a new method for estimating recombination rates from population genetic data. The method uses a computationally intensive statistical procedure (importance sampling) to calculate the likelihood under a coalescent-based model. Detailed comparisons of the new algorithm with two existing methods (the importance sampling method of Griffiths and Marjoram and the MCMC method of Kuhner and colleagues) show it to be substantially more efficient. (The improvement over the existing importance sampling scheme is typically by four orders of magnitude.) The existing approaches not infrequently led to misleading results on the problems we investigated. We also performed a simulation study to look at the properties of the maximum-likelihood estimator of the recombination rate and its robustness to misspecification of the demographic model.

Item Type: Article
Journal or Publication Title: Genetics
Additional Information: RAE_import_type : Journal article RAE_uoa_type : Statistics and Operational Research
Subjects: Q Science > QA Mathematics
Departments: Faculty of Science and Technology > Mathematics and Statistics
ID Code: 2416
Deposited By: ep_importer
Deposited On: 31 Mar 2008 13:54
Refereed?: Yes
Published?: Published
Last Modified: 09 Oct 2013 15:41
Identification Number:
URI: http://eprints.lancs.ac.uk/id/eprint/2416

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