gen.lineages: Create object of class GLgen for maternal or paternal...

In GENLIB: Genealogical Data Analysis

Create object of class GLgen for maternal or paternal lineages

Description

Creates an object of class GLgen that contains maternal or paternal lineages selected from input data in pedigree format

Usage

gen.lineages(ped, pro = "0", maternal = TRUE, ...)

Arguments

ped	A matrix or data frame with the following columns: individual id, father id, mother id, sex. Required. Individal id numbers must be numeric and unique. If an individual does not have a father and/or mother, the father and/or mother id numbers must be set to 0. All non-zero father and mother id numbers must also appear in the individual id column. Sex must be equal to M or 1 for males and F or 2 for females. The sex column is optional for this function but necessary for some other functions using GLgen objects.
pro	Vector of individual id numbers for which lineages should be included. Optional.
maternal	If mat=TRUE (default), maternal lineages are selected. mat=FALSE returns paternal lineages.
...	Option to pass additionnal arguments automaticaly between methods. Internal use only.

Value

returns a GLgen object

See Also

gen.genealogy gen.graph gen.branching gen.genout

Examples

data(geneaJi) 
genJi <- gen.genealogy(geneaJi)
genJi_MaLi<-gen.lineages(geneaJi, maternal = TRUE) 
genJi_FaLi<-gen.lineages(geneaJi, maternal = FALSE) 

# Plots of original genealogy and maternal and paternal lineages
layout(matrix(1:3,c(1,3),byrow=TRUE), widths =c(3,1,1), heights = 1)
gen.graph(genJi) 
mtext("Original", line=2)
gen.graph(genJi_MaLi) 
mtext("Maternal\nlineages", line=1)
gen.graph(genJi_FaLi) 
mtext("Paternal\nlineages", line=1)

GENLIB documentation built on Jan. 17, 2023, 5:16 p.m.