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PubMed · 15133307

Selecting loop breakers in general pedigrees.

Zulma G Vitezica·Marcel Mongeau·Eduardo Manfredi·Jean-Michel Elsen
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Abstract

The presence of loops in pedigrees poses severe computational problems in likelihood calculation that can be solved by creating an equivalent unlooped pedigree. We introduce a heuristic polynomial-time dynamic-programming algorithm, called SFH, that addresses the problem of selecting a minimal-cost set of loop breakers. We report computational experiments on simulated pedigrees with up to 1000 individuals and 361 loops, and multiple marriages. We compare the loop-breaker set selected by our method with that obtained using the software package FASTLINK 4.1P. Our approach outperforms FASTLINK 4.1P on the computational-time point of view, on the point of view of quality of the loop-breaker set obtained, and on the point of view of the size of the problem that can be addressed.

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AlgorithmsFemaleGenetic LinkageGenotypeHumansLikelihood FunctionsMaleModels, GeneticModels, StatisticalNuclear FamilyPedigreeSoftwareStatistics as TopicTime FactorsJournal ArticleResearch Support, Non-U.S. Gov't

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Zulma G Vitezica, Marcel Mongeau, Eduardo Manfredi, Jean-Michel Elsen. 2004. Selecting loop breakers in general pedigrees.. https://doi.org/10.1159/000077384

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