minorAlleleFrequency: Function to look at Allele Frequencies

In sruzi24/Lab4trial2: SNP Allele Frequency Estimation and Utilities

Description

Functions look at the allele frequencies, filter SNPs, and make a histogram of the data.

Usage

minorAlleleFrequency(SNPmat)
filterSNPs(SNPmat, minMAF=0.05)
mafHist(SNPmat)

Arguments

SNPmat	This is a matrix of SNP data
minMAF	Another arugment.

Value

minorAlleleFrequency returns a vector of allele frequencies filterSNPs returns a SNP matrix in the same format as SNPmat but with columns removed for SNPs with very rare alleles mafHist draws a plot and doesn't return anything

Author(s)

SAR

Examples

B <- matrix(c(2, 4, 3, 1, 5, 7), nrow=3,ncol=2)
minorAlleleFrequency(B)
filterSNPs(B)
mafHist(B)

sruzi24/Lab4trial2 documentation built on May 29, 2019, 9:49 a.m.