Journal
MOLECULAR BIOLOGY AND EVOLUTION
Volume 33, Issue 2, Pages 591-593Publisher
OXFORD UNIV PRESS
DOI: 10.1093/molbev/msv255
Keywords
composite likelihood; demographic inference; parameter uncertainties; likelihood ratio test
Funding
- National Science Foundation [DEB-1146074]
- Canada Research Chairs program
- Canadian Institutes of Health Research [MOP-134855]
- Division Of Environmental Biology
- Direct For Biological Sciences [1146074] Funding Source: National Science Foundation
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Many population genetics tools employ composite likelihoods, because fully modeling genomic linkage is challenging. But traditional approaches to estimating parameter uncertainties and performing model selection require full likelihoods, so these tools have relied on computationally expensive maximum-likelihood estimation (MLE) on bootstrapped data. Here, we demonstrate that statistical theory can be applied to adjust composite likelihoods and perform robust computationally efficient statistical inference in two demographic inference tools: partial derivative a partial derivative i and TRACTS. On both simulated and real data, the adjustments perform comparably to MLE bootstrapping while using orders of magnitude less computational time.
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