| haploProb {selfingTree} | R Documentation |
Probability of observing the target haplotype given the parental genotype.
Description
These functions derive the symbolic formula for the probability of observing the target haplotype given the parental genotype.
Usage
haploProb.2M(gam1,gam2,target) ## two-marker genotypes
haploProb.3M(gam1,gam2,target) ## three-marker genotypes
Arguments
gam1, gam2 |
Three (three-marker genotypes) or two (two-marker genotypes) character string with the configuration of gamete one and two of the parental genotype. |
target |
Three (three-marker genotypes) or two (two-marker genotypes) character string with the configuration of the target haplotype. |
Details
The idea behind the algorithm is to conceptually "recode" the alleles of the parental genotype into "target" and "non-target", where "target" is relative to the target haplotype. Then the rules are determined that would rearrange the gametes of the parental genotype into a "target-target-target" haplotype. These rearrangement rules are then translated into the symbolic formula.
Value
A character string with the symbolic formula. For three-marker
genotypes, x is the recombination frequency between markers 1
and 2 and y that between markers 2 and 3. For two-marker
genotypes, z is the recombination frequency between markers 1 and
2.
Author(s)
Frank Technow
Examples
haploProb.2M("AA","BB","AB")
haploProb.3M("AAA","BBB","ABA")