read_in_sequenom_data: Read in Sequenom Data

Description Usage Arguments Value Examples

View source: R/read_in_sequenom_data.R

Description

read_in_sequenom_data reads in a csv file produced from the Sequenom platform (i.e., sequenom excel output saved as a csv).

This function is a wrapper function around read.csv in order to read genotype data from the Sequenom Platform, and provide data compatible with the genotypeR package.

Usage

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read_in_sequenom_data(x, sort_char = "chr|contig", ...)

Arguments

x

This is a csv formatted Genotypes tab of exported sequenom data that you would like to read in.

sort_char

is the character string output by the PERL pipeline in the marker design phase (i.e., chr 1000 1050 AAA[A/T]GTC; the chr is the sort_char. Defaults to chr or contig.

...

Other arguments passed to the function

Value

A data frame suited for the genotypeR package

Examples

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sequenom_file <- system.file("extdata/sequenom_test_data.csv", package = "genotypeR")

sequenom_data <- read_in_sequenom_data(sequenom_file)

genotypeR documentation built on May 22, 2018, 5:07 p.m.