sampleSniffer: Finds the Closest Genetic Match for Each Sample

Description Usage Arguments Value

Description

Reads in all VCF files in input directory, calculates genetic distance between each pair of samples, and finds the closest genetic match for each sample. Either snps file or chromosome number must be specified, but only one can be used at a time. Valid values for chromosome option are numbers 1-23 and X. If output filename is given, value is defaulted to sampleSniffer.pdf.

Usage

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sampleSniffer(input = NULL, snps = NULL, chromosome = NULL,
  output = "sampleSniffer")

Arguments

input

Input directory containing VCF files

snps

Name of file containing the SNP IDs to be used

output

Name of output file

chromsome

Chromosome number to be used

Value

Matrix containing calculated genetic distance between samples


ceburris/sampleSniffer documentation built on May 14, 2019, 6:09 a.m.