count.allele: Count allele frequencies

In SimPhe: Tools to Simulate Phenotype(s) with Epistatic Interaction

Description

Count major and minor allele frequencies.

Usage

count.allele(x, ...)

Arguments

x	a vector of single SNP information (minor allele count for genotype).
...	not used.

Value

a vector with major and minor allele frequency.

Author(s)

Beibei Jiang [e-mail] and Benno Pütz [e-mail]

Examples

maf <- 0.1
x <- sample(0:2, 1000, replace = TRUE, prob = c((1-maf)^2, 2*(1-maf)*maf, maf^2))
table(x)
count.allele(x)

Example output

x
  0   1   2 
800 187  13 
[1] 0.8935 0.1065

SimPhe documentation built on May 1, 2019, 9:10 p.m.