GEO_getSampleMap: the GEO_getSampleMap function

In gevaertlab/EpiMix: EpiMix: an integrative tool for the population-level analysis of DNA methylation

the GEO_getSampleMap function

Description

auxiliary function to generate a sample map for DNA methylation data and gene expression data

Usage

GEO_getSampleMap(METdirectories, GEdirectories, targetDirectory = ".")

Arguments

METdirectories	list of the file paths to the downloaded DNA methylation datasets, which can be the output from the GEO_Download_DNAMethylation function.
GEdirectories	list of the file paths to the downloaded gene expression datasets, which can be the output from the GEO_Download_GeneExpression function.
targetDirectory	file path to save the output. Default: '.' (current directory)

Value

dataframe with three columns: $assay (character string indicating the type of the experiment, can be either 'DNA methylation' or 'Gene expression'), $primary(character string indicating the actual sample names), $colnames (character string indicating the actual column names for each samples in DNA methylation data and gene expression data)

gevaertlab/EpiMix documentation built on July 20, 2023, 9:28 a.m.