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ShadowBoxer and LocusEater: programs to optimise experimental design and multiplexing strategies for genetic mark-recapture

Hoyle, S. and Peel, D. and Ovenden, J.R. and Broderick, D. and Buckworth, R. (2005) ShadowBoxer and LocusEater: programs to optimise experimental design and multiplexing strategies for genetic mark-recapture. Molecular Ecology Notes, 5 (4). pp. 974-976.

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Article Link(s): http://dx.doi.org/10.1111/j.1471-8286.2005.01116.x

Publisher URL: http://www3.interscience.wiley.com/cgi-bin/home

Abstract

Genetic mark–recapture requires efficient methods of uniquely identifying individuals. 'Shadows' (individuals with the same genotype at the selected loci) become more likely with increasing sample size, and bias harvest rate estimates. Finding loci is costly, but better loci reduce analysis costs and improve power. Optimal microsatellite panels minimize shadows, but panel design is a complex optimization process. locuseater and shadowboxer permit power and cost analysis of this process and automate some aspects, by simulating the entire experiment from panel design to harvest rate estimation.

Item Type:Article
Corporate Creators:Fisheries
Additional Information:© The Authors. © Blackwell Publishing Ltd.
Keywords:Genetic tagging; harvest rate; individual-based models; mark recapture; optimization.
Subjects:Aquaculture and Fisheries > Fisheries > Fishery research
Science > Biology > Genetics
Science > Mathematics > Computer software
Deposited On:02 Mar 2009 01:14
Last Modified:07 Sep 2010 07:26

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