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lumi (version 2.24.0)

produceGEOSampleInfoTemplate: Produce the template of GEO sample information

Description

Produce the template of GEO sample information, which is used for function produceGEOSubmissionFile.

Usage

produceGEOSampleInfoTemplate(lumiNormalized, lib.mapping = NULL, fileName = "GEOsampleInfo.txt")

Arguments

lumiNormalized
The normalized data (LumiBatch object)
lib.mapping
The Illumina ID Mapping library, e.g., "lumiHumanIDMapping"
fileName
The file name of Tab separated sample information file

Value

Save the result as a Tab separated text file or return a data.frame if the fileName is NULL.

Details

This function just produces a template of sample information with some default fillings. Users need to fill in the detailed sample descriptions, especially the Sample\_title, Sample\_description and some protocols. No blank fields are allowed. Function produceGEOSubmissionFile will produce the file GEO submission file based on this sample information. The users should not use "\#" in the description as it is a reserved character.

References

http://www.ncbi.nlm.nih.gov/projects/geo/info/soft2.html

See Also

produceGEOSubmissionFile