scbasic: Load data in GTC format into data frame

In Meiomap/SureTypeSCR: Library for (single-cell) SNP array processing

Description

Function instantiates Illumina BeadArray library to load data from GTC files into data frame using information from manifest and cluster file.

Usage

scbasic(bpm,egt,samplesheet)

Arguments

bpm	pathname to manifest file
egt	pathname to cluster file
samplesheet	pathname to samplesheet

Value

data frame stacked by individual

Examples

setwd(system.file(package='SureTypeSCR'))
samplesheet=system.file('files/GSE19247_example.csv',package='SureTypeSCR')
manifest=system.file('files/HumanCytoSNP-12v2_H.bpm',package='SureTypeSCR')
cluster=system.file('files/HumanCytoSNP-12v2_H.egt',package='SureTypeSCR')

#Load data
df=scbasic(manifest,cluster,samplesheet)

Meiomap/SureTypeSCR documentation built on Dec. 17, 2021, 3:22 a.m.