R: Parse GEO text

parseGEO {GEOquery}

R Documentation

Parse GEO text

Description

Workhorse GEO parsers.

Usage

parseGEO(fname, GSElimits)
parseGPL(fname)
parseGDS(fname)
parseGSE(fname, GSElimits)
parseGSM(fname)

Arguments

`fname`	The filename of a SOFT format file. If the filename ends in .gz, a gzfile() connection is used to read the file directly.
`GSElimits`	Used to limit the number of GSMs parsed into the GSE object; useful for memory management for large GSEs.

Details

These are probably not useful to the end-user. Use getGEO to access these functions. parseGEO simply delegates to the appropriate specific parser. There should be no reason to use the parseGPL, parseGDS, parseGSE, or parseGSM functions directly.

Value

parseGEO returns an object of the associated type. For example, if it is passed the text from a GDS entry, a GDS object is returned.

Author(s)

Sean Davis