NAME

Bio::MAGETAB::Investigation - MAGE-TAB investigation class

SYNOPSIS

 use Bio::MAGETAB::Investigation;

DESCRIPTION

This class is used to store top-level information on the investigation in MAGE-TAB. This class also acts as a container for the information in an IDF file. See the BaseClass class for superclass methods.

ATTRIBUTES

title (required): The title of the investigation (data type: String).
description (optional): A free-text description of the investigation (data type: String).
date (optional): The date on which the investigation was performed (data type: Date).
publicReleaseDate (optional): The date on which the experimental data was, or will be, publicly released (data type: Date).
contacts (optional): A list of contacts for the investigation (data type: Bio::MAGETAB::Contact).
factors (optional): A list of experimental factors (variables) studied during the investigation (data type: Bio::MAGETAB::Factor).
sdrfs (optional): A list of SDRFs associated with the investigation (data type: Bio::MAGETAB::SDRF).
protocols (optional): A list of experimental protocols used in the investigation (data type: Bio::MAGETAB::Protocol)
publications (optional): A list of publications related to the investigation (data type: Bio::MAGETAB::Publication).
termSources (optional): A list of term sources (usually databases and/or ontologies) used to annotate the investigation (data type: Bio::MAGETAB::TermSource).
designTypes (optional): A list of experiment design types, typically taken from a suitable ontology (data type: Bio::MAGETAB::ControlledTerm).
normalizationTypes (optional): A list of experiment data normalization types (data type: Bio::MAGETAB::ControlledTerm).
replicateTypes (optional): A list of replicate types for the experiment (typically specifying technical and/or biological replicates; date type: Bio::MAGETAB::ControlledTerm).
qualityControlTypes (optional): A list of quality control terms describing the experiment (data type: Bio::MAGETAB::ControlledTerm).
comments (optional): A list of user-defined comments attached to the investigation (data type: Bio::MAGETAB::Comment).

METHODS

Each attribute has accessor (get_*) and mutator (set_*) methods, and also predicate (has_*) and clearer (clear_*) methods where the attribute is optional. Where an attribute represents a one-to-many relationship the mutator accepts an arrayref and the accessor returns an array.

AUTHOR

Tim F. Rayner <tfrayner@gmail.com>

LICENSE

This library is released under version 2 of the GNU General Public License (GPL).