pedisimu {KINSIMU}

Pedigree simulation

Description

Generating genotype combinations of multiple pedigrees with specific relationships on an autosomal marker.

Usage

pedisimu(
  af,
  ss,
  pedi,
  random_name = "RI",
  muf = 0,
  mum = 0,
  allelename = FALSE
)

Arguments

af

name of allele frequency matrix, a data.frame of 1 column containing frequencies with allele names being row names, which can be loaded with "EvaluatePanel" function, not necessary if Parent is not NULL

ss

sample size, i.e., how many individual pairs do you want simulate

pedi

a matrix in data.frame form containing the pedigree structure information

random_name

the name of random individual, with a default of "RI"

muf

father-child mutation rate

mum

mother-child mutation rate

allelename

if TRUE the output data would be the allele name, which should be the row names of af matrix, otherwise, it would be the position in that matrix

Value

A data.frame with ss rows and 2*n columns, where n is equal to the number of rows in the pedi data.frame. Each pair of columns contains alleles of an individual, with the individuals sorted in the same order as in the pedi data.frame.

Examples

#simulating a first cousin pedigree without considring mutation
pedi<-pediexample
af<-FortytwoSTR$afmatrix[[1]]
pedisimu(af = af,ss = 10000,pedi = pedi)