Software for quantifying and simulating microsatellite genotyping error

Johnson, P.C.D. and Haydon, D.T. (2007) Software for quantifying and simulating microsatellite genotyping error. Bioinformatics and Biology Insights, 1, pp. 71-75.

Full text not currently available from Enlighten.

Abstract

Microsatellite genetic marker data are exploited in a variety of fields, including forensics, gene mapping, kinship inference and population genetics. In all of these fields, inference can be thwarted by failure to quantify and account for data errors, and kinship inference in particular can benefit from separating errors into two distinct classes: allelic dropout and false alleles. Pedant is MS Windows software for estimating locus-specific maximum likelihood rates of these two classes of error. Estimation is based on comparison of duplicate error-prone genotypes: neither reference genotypes nor pedigree data are required. Other functions include: plotting of error rate estimates and confidence intervals; simulations for performing power analysis and for testing the robustness of error rate estimates to violation of the underlying assumptions; and estimation of expected heterozygosity, which is a required input.

Item Type:Articles
Status:Published
Refereed:Yes
Glasgow Author(s) Enlighten ID:Johnson, Dr Paul and Haydon, Professor Daniel
Authors: Johnson, P.C.D., and Haydon, D.T.
College/School:College of Medical Veterinary and Life Sciences > Institute of Biodiversity Animal Health and Comparative Medicine
College of Medical Veterinary and Life Sciences > Institute of Health and Wellbeing > Robertson Centre
Journal Name:Bioinformatics and Biology Insights
Publisher:Libertas Academica
ISSN:1177-9322
ISSN (Online):1177-9322
Published Online:24 November 2009
Related URLs:

University Staff: Request a correction | Enlighten Editors: Update this record