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
AUTHOR
Tim F. Rayner <tfrayner@gmail.com>
LICENSE
This library is released under version 2 of the GNU General Public License (GPL).