Revising how the computer program cervus accommodates genotyping error increases success in paternity assignment

Revising how the computer program cervus accommodates genotyping error increases success in... Genotypes are frequently used to identify parentage. Such analysis is notoriously vulnerable to genotyping error, and there is ongoing debate regarding how to solve this problem. Many scientists have used the computer program cervus to estimate parentage, and have taken advantage of its option to allow for genotyping error. In this study, we show that the likelihood equations used by versions 1.0 and 2.0 of cervus to accommodate genotyping error miscalculate the probability of observing an erroneous genotype. Computer simulation and reanalysis of paternity in Rum red deer show that correcting this error increases success in paternity assignment, and that there is a clear benefit to accommodating genotyping errors when errors are present. A new version of cervus (3.0) implementing the corrected likelihood equations is available at http://www.fieldgenetics.com. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Molecular Ecology Wiley

Revising how the computer program cervus accommodates genotyping error increases success in paternity assignment

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Publisher
Wiley Subscription Services, Inc., A Wiley Company
Copyright
Copyright © 2007 Wiley Subscription Services, Inc., A Wiley Company
ISSN
0962-1083
eISSN
1365-294X
D.O.I.
10.1111/j.1365-294X.2007.03089.x
Publisher site
See Article on Publisher Site

Abstract

Genotypes are frequently used to identify parentage. Such analysis is notoriously vulnerable to genotyping error, and there is ongoing debate regarding how to solve this problem. Many scientists have used the computer program cervus to estimate parentage, and have taken advantage of its option to allow for genotyping error. In this study, we show that the likelihood equations used by versions 1.0 and 2.0 of cervus to accommodate genotyping error miscalculate the probability of observing an erroneous genotype. Computer simulation and reanalysis of paternity in Rum red deer show that correcting this error increases success in paternity assignment, and that there is a clear benefit to accommodating genotyping errors when errors are present. A new version of cervus (3.0) implementing the corrected likelihood equations is available at http://www.fieldgenetics.com.

Journal

Molecular EcologyWiley

Published: Mar 1, 2007

References

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