expected.segRatio function

Compute theoretical segregation proportions for regular autopolyploids

Expected segregation proportions for various dosages of dominant markers for regular autopolyploids are calculated using the formula of Ripol et al (1999) based on Haldane (1930) for single dose and multiple dose parents cross nulliplex ("homozygous") and an unpublished formula where both parents possess at least single dose markers ("heterogeneous")

expected.segRatio(ploidy.level = stop("No ploidy level set"),
type.parents = c("heterogeneous", "homozygous"))

Arguments

• ploidy.level: the number of homologous chromosomes, either as numeric or as a character string
• type.parents: "heterogeneous" if parental markers are 0,1 or "homogeneous" if parental markers are both 1

Returns

• ratio: vector of proportions for each dosage

• ploidy.level: numeric value of ploidy level 2,4,6,8, ...

• ploidy.name: name of ploidy

References

• J B S Haldane(1930) Theoretical genetics of autopolyploids. Journal of genetics 22 359--372
• Ripol, M I et al(1999) Statistical aspects of genetic mapping in autopolyploids. Gene 235 31--41

Author(s)

Peter Baker p.baker1@uq.edu.au

Warning

While results will be returned if the ploidy level is set as an odd number, the formula used are only for even numbers.

See Also

segRatio, test.segRatio

Examples

## heterogeneous parents

expected.segRatio(2)
expected.segRatio("Tetraploid")
expected.segRatio("tEtR")
expected.segRatio("octo")
expected.segRatio("Octa")
expected.segRatio(14)
## warning
expected.segRatio(9)

## errors - not run
## expected.segRatio("abcd")
## expected.segRatio(-1)

## homogeneous parents

expected.segRatio("Octa", type.parents="heter")
expected.segRatio("Octa", type.parents="homo")
expected.segRatio("tetra", type.parents="homo")
expected.segRatio(6, type.parents="homo")
expected.segRatio(9, type.parents="homo")