NAME
Microarray::GEO::SOFT::GDS - GEO data set data class
SYNOPSIS
use Microarray::GEO::SOFT:
my $soft = Microarray::GEO::SOFT->new;
$soft->download("GDS3719");
my $gds = $soft->parse;
# the meta information
$gds->meta;
$gds->platform;
$gds->title;
$gds->field;
$gds->accession;
# the sample data is a matrix (in fact it is a vector)
$gds->matrix;
# the names for each column
$gds->colnames;
$ the names for each row, it is the primary id for rows
$gds->rownames;DESCRIPTION
This module retrieves GDS data.
Subroutines
new("file" = $file)-
Initial a GDS class object. The only argument is the path of the microarray data in SOFT format or a file handle that has been openned.
$gds->parse-
Retrieve sample information from microarray data. The sample data in SOFT format is alawys a table
$gds->meta-
Get meta information
$gds->platform-
Get accession number of the platform
$gds->title-
Title of the platform record
$gds->field-
Description of each field in the data matrix
$gds->accession-
Accession number for the sample
AUTHOR
Zuguang Gu <jokergoo@gmail.com>
COPYRIGHT AND LICENSE
Copyright 2012 by Zuguang Gu
This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself, either Perl version 5.12.1 or, at your option, any later version of Perl 5 you may have available.