NAME
Microarray::Feature - A Perl module for creating and manipulating microarray feature objects
SYNOPSIS
use Microarray;
my $feature = array_feature->new('feature 1');
$feature->add_feature_spot($spot);DESCRIPTION
Microarray::Feature is an object-oriented Perl module for creating and manipulating microarray feature objects. It serves as a container into which you place spot objects that are replicates of the same genetic feature, and returns average information about those spots.
METHODS
- feature_id
-
Name of the feature
- genetic_data
-
An object containing relevant genetic data.
- get_feature_spots
-
Returns a list of spot objects attributed to a feature
- get_feature_replicates
-
Returns the number of spots attributed to a feature
- spots_passed_qc
-
Returns the number of spots that passed QC criteria and are included in the feature data
- mean_ch1 and mean_ch2
-
Mean signal of all spots representing a feature
- mean_ratios and mean_log_ratios
-
Calculates the ratio (or log2 ratio) between the two signal channels for each replicate, and returns the mean of those values
- ratio_means and log_ratio_means
-
Calculates the mean of the replicate signals for each channel, and returns their ratio (or log2 ratio)
SEE ALSO
AUTHOR
Christopher Jones, Translational Research Laboratories, Institute for Women's Health, University College London.
http://www.instituteforwomenshealth.ucl.ac.uk/trl
c.jones@ucl.ac.uk
COPYRIGHT AND LICENSE
Copyright 2006 by Christopher Jones, University College London
This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself.