analyses

Class ReacAnalysis

java.lang.Object

analyses.Analysis

analyses.ReacAnalysis

public class ReacAnalysis
extends Analysis

Class to run an analysis with one varying flux value.

Author:

lmarmiesse 18 avr. 2013

Field Summary

Fields

Modifier and Type	Field and Description
(package private) double	deltaF Difference between each step.
(package private) double	end Final value
private java.util.Map<parsebionet.biodata.BioEntity,java.lang.Double>	entities Varying entity with it's coefficient (1) to make a constraint.
private boolean	fva Determines if FVA's must be performed on each phenotype phase.
(package private) double	init Initial value
(package private) int	minGrpsSize Minimal group size to consider it is a phenotype phase.
(package private) java.lang.String	name Name of the varying entity.
protected java.util.List<ThreadReac>	threads

Fields inherited from class analyses.Analysis

b

Constructor Summary

Constructors

Constructor and Description
ReacAnalysis(Bind bind, java.util.Map<parsebionet.biodata.BioEntity,java.lang.Double> entities, java.lang.String name, double init, double end, double deltaF, boolean fva)

Method Summary

Methods

Modifier and Type	Method and Description
ReacAnalysisResult	runAnalysis() Runs the analysis.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

name

java.lang.String name

Name of the varying entity.

init

double init

Initial value

end

double end

Final value

deltaF

double deltaF

Difference between each step.

threads

protected java.util.List<ThreadReac> threads

entities

private java.util.Map<parsebionet.biodata.BioEntity,java.lang.Double> entities

Varying entity with it's coefficient (1) to make a constraint.

minGrpsSize

int minGrpsSize

Minimal group size to consider it is a phenotype phase.

fva

private boolean fva

Determines if FVA's must be performed on each phenotype phase.

Constructor Detail

ReacAnalysis

public ReacAnalysis(Bind bind,
            java.util.Map<parsebionet.biodata.BioEntity,java.lang.Double> entities,
            java.lang.String name,
            double init,
            double end,
            double deltaF,
            boolean fva)

Method Detail

runAnalysis

public ReacAnalysisResult runAnalysis()

Description copied from class: Analysis

Runs the analysis.

Specified by:

runAnalysis in class Analysis

Returns:

An object containing the result of the analysis.