illumina_Genotype_Table: Make genotypeR Alt_Ref_Table

In genotypeR: SNP Genotype Marker Design and Analysis

Description

illumina_Genotype_Table produces the Alt_Ref_Table needed by initialize_genotypeR_data from illumina's goldengate platform.

Usage

illumina_Genotype_Table(tab_delimited_file, flanking_region_length, chromosome)

Arguments

tab_delimited_file	is a tab delimited AB illumina GoldenGate file
flanking_region_length	is the length in bp of the flanking region of the SNP
chromosome	is a vector of chromosome names

Value

data frame useful used in genotypeR

Examples

## Not run: 
##Files not included to provide working example
test_data <- read_in_illumina_GoldenGate(tab_delimited_file="path_to_goldengate_file"
, flanking_region_length=50, chromosome=rep("chr2",
length.out=length(552960)))
illumina_table <- illumina_Genotype_Table(tab_delimited_file= \
"path_to_goldengate_file", flanking_region_length=50,
chromosome=rep("chr2", length.out=length(552960)))

## End(Not run)

genotypeR documentation built on May 2, 2019, 8:25 a.m.