Manual Reference Pages - BIO::MAGETAB::DATAMATRIX (3)
Bio::MAGETAB::DataMatrix - MAGE-TAB data matrix class
This class describes a particular type of data file known as a data
matrix. The format of these data matrices is precisely defined, such
that columns represent quantitation types applied to nodes of interest
within the SDRF (e.g. scanned intensity values), and rows represent
design elements (e.g. probes). See the Data class for
superclass methods, the DataFile class for the generic data
file class, and the MAGE-TAB specification for more information on
The type of identifier used for each matrix row. This will typically
be Reporter, Composite Element, Term Source or Coordinate. This is
primarily used to record whatever is claimed by the original data
matrix file heading, which may be used to validate the matrixRow
DesignElements subsequent to the parsing step. However, given that
this is redundant information this attribute may be dropped in a later
version of the model (data type: String).
A list of MatrixColumn objects which map the columns of the data
matrix to quantitation types and SDRF nodes. Note that this list may
be unordered, and that the MatrixColumn objects themselves have a
columnNumber attribute which defines column ordering (data type:
A list of MatrixRow objects which map the rows of the data matrix to
design elements. Note that this list may be unordered, and that the
MatrixRow objects themselves have a rowNumber attribute which defines
row ordering (data type: Bio::MAGETAB::MatrixRow).
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
Tim F. Rayner <email@example.com>
This library is released under version 2 of the GNU General Public
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