Nonparametric methods of linkage analysis (4)
Pedigree-based methods
An early method was the affected pedigree member method (APM) which
aimed to detect increased allele-sharing IBS between all affected
members of a pedigree.
The indicated subjects are identical-by-state for two alleles, but
identical-by-descent for neither.
ERPA tested for increased IBD sharing between all pairs of affected
pedigree members.
SIMIBD tests for increased IBD sharing between affected pedigree members
conditional on the genotypes of the other subjects in the pedigree.
GENEHUNTER tests for increased IBD sharing between all affected subjects
in a pedigree, and also calculates multipoint lod scores, although it
cannot deal with large pedigrees.
MFLINK is not nonparametric, but does aim to detect linkage without specification
of a transmission model.
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