Format

Send to

Choose Destination
Genet Sel Evol. 2007 Jan-Feb;39(1):27-38. Epub 2007 Jan 11.

Improved techniques for sampling complex pedigrees with the Gibbs sampler.

Author information

1
Iowa State University, Ames, IA 50011, USA. abraham@iastate.edu

Abstract

Markov chain Monte Carlo (MCMC) methods have been widely used to overcome computational problems in linkage and segregation analyses. Many variants of this approach exist and are practiced; among the most popular is the Gibbs sampler. The Gibbs sampler is simple to implement but has (in its simplest form) mixing and reducibility problems; furthermore in order to initiate a Gibbs sampling chain we need a starting genotypic or allelic configuration which is consistent with the marker data in the pedigree and which has suitable weight in the joint distribution. We outline a procedure for finding such a configuration in pedigrees which have too many loci to allow for exact peeling. We also explain how this technique could be used to implement a blocking Gibbs sampler.

PMID:
17212946
PMCID:
PMC2739431
DOI:
10.1051/gse:2006032
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for BioMed Central Icon for PubMed Central
Loading ...
Support Center