getAffy: Charge and create an AffyBatch object

In gibbslab/coexnet: coexnet: An R package to build CO-EXpression NETworks from Microarray Data

Description

Charges the data from a file with the GSM samples compressed using the "filelist.txt" file to identify the GSM ID and create the AffyBatch object finally.

Usage

getAffy(GSE, directory = ".")

Arguments

GSE	The name of the file with the compressed samples data.
directory	The path file where the samples and the "filelist" file are to create the AffyBatch object, by default is the current directory.

Value

An AffyBatch Object.

Author(s)

Juan david Henao <[e-mail]>

See Also

getInfo to download expression data from GEO DataSets included the "filelist" file.

Examples

# Creating the AffyBatch object from raw data downloaded
# The data is from partial experiment results from Greene JG(2006), GEO accession: GSE4773

# Data without CDF environment information

affy <- getAffy(GSE = "GSE1234",directory = system.file("extdata",package = "coexnet"))

gibbslab/coexnet documentation built on May 17, 2019, 4:19 a.m.