Package transsys :: Module optim :: Class ExpressionSeriesCorrelationObjective
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Class ExpressionSeriesCorrelationObjective

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               object --+        
                        |        
AbstractObjectiveFunction --+    
                            |    
    ExpressionSeriesObjective --+
                                |
                               ExpressionSeriesCorrelationObjective

Correlation based objective function.

The objective value for each factor is 1 - r, where r is the Pearson correlation coefficient of the desired and the observed expression profile of the factor. The objective value of a transsys program is the sum of the objective values of all factors.

If all expression levels of a factor are identical in either the desired or the observed profile, the objective value for that factor is 2.

Instance Methods [hide private]
 
__init__(self, f=None)
Construct an instance holding an empty series.
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__call__(self, transsys_program)
Abstract call method, raises exception.
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Inherited from ExpressionSeriesObjective: __str__, readProfiles, series_length

Inherited from object: __delattr__, __getattribute__, __hash__, __new__, __reduce__, __reduce_ex__, __repr__, __setattr__

Properties [hide private]

Inherited from object: __class__

Method Details [hide private]

__init__(self, f=None)
(Constructor)

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Construct an instance holding an empty series.

Overrides: object.__init__
(inherited documentation)

__call__(self, transsys_program)
(Call operator)

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Abstract call method, raises exception.

Parameters:
  • transsys_program - the transsys program to be evaluated
Overrides: AbstractObjectiveFunction.__call__
(inherited documentation)