regionCountMutation: Count number of mutation in 7 regions of VAF scatter plot for...

In lpwgit/sampleContamination: Sample Contamination R Package

Description

This function counts number of SNPs in 7 regions of pairwise samples VAF scatter plot

Usage

regionCountMutation(sample_pairs,VAFdata,SNPcount,SNPshare,VAF_cutoff,VAF_ignore,n)

Arguments

sample_pairs	data frame, pairwise samples information
VAFdata	data frame, mutation VAF
SNPcount	integer matrix, number of SNPs for each sample
SNPshare	integer matrix, number of common SNPs
VAF_cutoff	numeric, minimum VAF (default: 0.002)
VAF_ignore	numeric, ignore variant below this cutoff (default: 0.2)
n	integer, number of sample

Value

matrix, (n mutation x 10) containing number of SNPs in 7 regions, number of SNPs in s1, number of SNPs in s2, common SNPs between s1 and s2

References

TBA

lpwgit/sampleContamination documentation built on May 21, 2019, 7:51 a.m.