readHeader {limma}R Documentation

Read Header Information from Image Analysis Raw Data File

Description

Read the header information from a GenePix Results (GPR) file or from an SMD raw data file. These functions are used internally by read.maimages and are not usually called directly by users.

Usage

readBlueFuseHeader(file)
readGPRHeader(file)
readSMDHeader(file)

Arguments

file character string giving file name. If it does not contain an absolute path, the file name is relative to the current working directory.

Details

Raw data files exported by image analysis programs include a number of header lines which contain information about the scanning process. This function extracts that information and locates the line where the intensity data begins. readBlueFuseHeader is for BlueFuse output, readGPRHeader is for GenePix output, readSMDHeader is for files from the Stanford Microarray Database (SMD).

Value

A list with components corresponds to lines of header information. A key component is NHeaderRecords which gives the number of lines in the file before the intensity data begins. All other components are character vectors.

Author(s)

Gordon Smyth. Gregory Lefebvre wrote the original version of readBlueFuseHeader.

References

See http://www.axon.com/gn_GenePix_File_Formats.html for GenePix formats.

See http://www.bluegnome.co.uk for information on BlueFuse.

See http://genome-www.stanford.edu/Microarray for the SMD.

See Also

read.maimages

An overview of LIMMA functions to read data is given in 03.ReadingData.


[Package limma version 2.4.7 Index]