simMixParamlink: Generates DNA mixtures

In euroMixR: Calculations for DNA mixtures, only R code

Description

A DNA mixture is generated from individual genotypes using the R package paramlink

Usage

simMixParamlink(y, alleles)

Arguments

y	linkdat object from paramlink
alleles	Alleles in original form.

Details

The alleles are internally represented as consecutive integers 1,2,..., mixtures are generated and transferred back to original allele values

Value

A list of length equal to the number of markers (or simulations) each giving the mixture

Author(s)

Thore Egeland <[e-mail]>

Examples

#Example 1
require(paramlink)
x=cousinPed(1)
x=swapSex(addOffspring(x,father=7,mother=8,noff=2),ids=9)
plot(x)
data(db)
locus="FGA"
afreq1=db[db$Marker==locus,3]
alleles=db[db$Marker==locus,2]
m1=marker(x,alleles=alleles,afreq=afreq1)
y=markerSim(x,N=3,available=c(9,10),partialmarker=m1,verbose=FALSE,loop=7,seed=2)
res=simMixParamlink(y,alleles)
plot(y,marker=1:3)

#Example 2  With conditioning
x=halfCousinPed(2)
data(db)
locus="FGA"
afreq1=db[db$Marker==locus,3]
alleles=db[db$Marker==locus,2]
g.13=c(18,19.2)
m1=marker(x,13,g.13,alleles=alleles,afreq=afreq1)
y=markerSim(x,N=2,available=c(8,9,12),partialmarker=m1,verbose=FALSE,seed=2)
res=simMixParamlink(y,alleles)
plot(y,marker=1:2,cex=0.7,starred=13)

euroMixR documentation built on May 2, 2019, 4:54 p.m.