LDHScpp                 Expectation Maximisation (EM) algorithm
bestmapfun              Best fitting genetic-map function
checkCandidates         Candidates for misplacement
countNumbers            Count genotype combinations at 2 SNPs
daughterSire            targetregion: allocation of paternal half-sib
                        families
editraw                 Editing results of hsrecombi
felsenstein             Felsenstein's genetic map function
geneticPosition         Estimation of genetic position
genotype.chr            targetregion: progeny genotypes
haldane                 Haldane's genetic map function
hapSire                 targetregion: sire haplotypes
hsrecombi               Estimation of recombination rate and maternal
                        LD
karlin                  Liberman and Karlin's genetic map function
kosambi                 Kosambi's genetic map function
loglikfun               Calculate log-likelihood function
makehap                 Make list of imputed sire haplotypes
makehaplist             Make list of sire haplotypes
makehappm               Make list of imputed haplotypes and estimate
                        recombination rate
map.chr                 targetregion: physical map
rao                     System of genetic-map functions
rao inverse             Approximation to inverse of Rao's system of map
                        functions
startvalue              Start value for maternal allele and haplotype
                        frequencies
targetregion            Description of the targetregion data set
