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Improved confidence intervals for the linkage disequilibrium method for estimating effective population size
Jones, A. T. Ovenden, J. R. Wang, Y.-G.
Jones, A. T.
Ovenden, J. R.
Wang, Y.-G.
Abstract
The linkage disequilibrium method is currently the most widely used single sample estimator of genetic effective population size. The commonly used software packages come with two options, referred to as the parametric and jackknife methods, for computing the associated confidence intervals. However, little is known on the coverage performance of these methods, and the published data suggest there may be some room for improvement. Here, we propose two new methods for generating confidence intervals and compare them with the two in current use through a simulation study. The new confidence interval methods tend to be conservative but outperform the existing methods for generating confidence intervals under certain circumstances, such as those that may be encountered when making estimates using large numbers of single-nucleotide polymorphisms.
Keywords
Date
2016
Type
Journal article
Journal
Heredity
Book
Volume
117
Issue
4
Page Range
217-223
Article Number
ACU Department
Institute for Learning Sciences and Teacher Education (ILSTE)
Faculty of Education and Arts
Faculty of Education and Arts
Relation URI
Source URL
Event URL
Open Access Status
License
All rights reserved
File Access
Controlled