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NEESTIMATOR v2: re-implementation of software for the estimation of contemporary effective population size (N-e) from genetic data

Do, C. and Waples, R. S. and Peel, D. and Macbeth, G. M. and Tillett, B. J. and Ovenden, J. R. (2014) NEESTIMATOR v2: re-implementation of software for the estimation of contemporary effective population size (N-e) from genetic data. Molecular Ecology Resources, 14 (1). pp. 209-214. ISSN 1755-098X; 1755-0998

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Article Link(s): http://dx.doi.org/10.1111/1755-0998.12157

Abstract

NeEstimator v2 is a completely revised and updated implementation of software that produces estimates of contemporary effective population size, using several different methods and a single input file. NeEstimator v2 includes three single-sample estimators (updated versions of the linkage disequilibrium and heterozygote-excess methods, and a new method based on molecular coancestry), as well as the two-sample (moment-based temporal) method. New features include the following: (i) an improved method for accounting for missing data; (ii) options for screening out rare alleles; (iii) confidence intervals for all methods; (iv) the ability to analyse data sets with large numbers of genetic markers (10000 or more); (v) options for batch processing large numbers of different data sets, which will facilitate cross-method comparisons using simulated data; and (vi) correction for temporal estimates when individuals sampled are not removed from the population (Plan I sampling). The user is given considerable control over input data and composition, and format of output files. The freely available software has a new JAVA interface and runs under MacOS, Linux and Windows.

Item Type:Article
Business groups:Animal Science
Subjects:Technology > Technology (General)
Science > Biology > Molecular Biology
Science > Biology > Genetics
Deposited On:02 Jul 2014 02:56
Last Modified:02 Jul 2014 02:56

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