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Updated: Aug 5, 2026

A Quantitative Fitness Analysis Workflow
Published on: August 13, 2012
The full EM algorithm for the MLEs of QTL effects and positions and their estimated variances in multiple-interval
1Department of Statistics and Applied Probability, National University of Singapore, Singapore 117543. stachenz@nus.edu.sg
Abstract:
The advent of complete genetic linkage maps of DNA markers has made systematic studies of mapping quantitative trait loci (QTL) in experimental organisms feasible. The method of multiple-interval mapping provides an appropriate way for mapping QTL using genetic markers. However, efficient algorithms for the computation involved remain to be developed. In this article, a full EM algorithm for the simultaneous computation of the MLEs of QTL effects and positions is developed. EM-based formulas are derived for computing the observed Fisher information matrix. The full EM algorithm is compared with an ECM algorithm developed by Kao and Zeng (1997, Biometrics 53, 653-665). The validity of the inverted observed Fisher information matrix as an estimate of the variance matrix of the MLEs is demonstrated by a simulation study.
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