Estimation of Recombination Rate and Maternal LD in Half-Sibs

Paternal recombination rate and maternal linkage disequilibrium (LD) are estimated for pairs of biallelic markers such as single nucleotide polymorphisms (SNPs) from progeny genotypes and sire haplotypes. At least one sire has to be double heterozygous at the investigated pairs of SNPs. The implementation relies on paternal half-sib families. If maternal half- sib families are used, the roles of sire/dam are swapped. Multiple families can be considered. Hampel, Teuscher, Gomez-Raya, Doschoris, Wittenburg (2018) "Estimation of recombination rate and maternal linkage disequilibrium in half-sibs" . Gomez-Raya (2012) "Maximum likelihood estimation of linkage disequilibrium in half-sib families" .


News

Reference manual

It appears you don't have a PDF plugin for this browser. You can click here to download the reference manual.

install.packages("hsrecombi")

0.1.3 by Dörte Wittenburg, a month ago


Browse source code at https://github.com/cran/hsrecombi


Authors: Dörte Wittenburg [aut, cre]


Documentation:   PDF Manual  


GPL (>= 2) license


Imports Rcpp, hsphase, dplyr, data.table, rlist

Linking to Rcpp


See at CRAN