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Bioinformatics Vol. 18 no. 90001 2002
Pages S189-S198
© 2002 Oxford University Press

Exact genetic linkage computations for general pedigrees

M. Fishelson and D. Geiger

Computer Science Department, Technion, Haifa 32000, Israel

Received on January 24, 2002 ; revised on March 26, 2002 ; accepted on March 26, 2002

Motivation: Genetic linkage analysis is a useful statistical tool for mapping disease genes and for associating functionality of genes with their location on the chromosome. There is a need for a program that computes multipoint likelihood on general pedigrees with many markers that also deals with two-locus disease models.

Results: In this paper we present algorithms for performing exact multipoint likelihood calculations on general pedigrees with a large number of highly polymorphic markers, taking into account a variety of disease models. We have implemented these algorithms in a new computer program called SUPERLINK which outperforms leading linkage software with regards to functionality, speed, memory requirements and extensibility.

Availability: SUPERLINK is available at http://bioinfo.cs.technion.ac.il/superlink

Contact: fmaayan{at}cs.technion.ac.il dang{at}cs.technion.ac.il

Keywords: Bayesian networks; Fastlink; Genehunter; linkage analysis; Vitesse.


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