aimFreqDist

Calculate frequencies of AIMs in parental pops. Allele frequency difference threshold must be >= 0.5

Usage

aimFreqDist(vcfR = NULL, pm = NULL, p1 = NULL, p2 = NULL, difference = NULL)

Arguments

vcfR

data in vcfR format

pm

data.frame containing two columns, "id" and "pop". The ids must match those in the vcfR object, but don't need to be in the same order. Each sample must be assigned to a population

p1

(character) name of parental population 1

p2

(character) name of parental population 2

difference

(numeric) allele frequency difference threshold, must be between 0 and 1

Value

dataframe containing allele frequency of AIMs in parental pops and differences between them

Examples

#aimFreqDist(vcfR = example.vcfR, pm = example.popmap, p1 = 0, p2 = 20, difference = 1)