Tim Rayner > Bio-MAGETAB-1.24 > Bio::MAGETAB::Investigation

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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.

SEE ALSO ^

Bio::MAGETAB::BaseClass

AUTHOR ^

Tim F. Rayner <tfrayner@gmail.com>

LICENSE ^

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

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