lumpAlleles: Allele lumping
In pedprobr: Probability Computations on Pedigrees

Description Usage Arguments Value Examples

View source: R/reduceAlleles.R

Perform allele lumping (i.e., merging unobserved alleles) for all markers attached to the input pedigree.

1	lumpAlleles(x, markers = NULL, verbose = FALSE)

`x`	A `ped` object or a list of such.
`markers`	A vector of names or indices referring to markers attached to `x`. (Default: All markers.)
`verbose`	A logical.

An object similar to x, but whose attached markers have reduced allele set.

x = nuclearPed()
x = setMarkers(x, marker(x, geno = c("1/1", NA, NA), alleles = 1:4))

# Before lumping
afreq(x, 1)

# Lump
y = lumpAlleles(x, verbose = TRUE)
afreq(y, 1)