sbrt.kernel.fba.proc
Class NetworkInfoProcess.Results<F extends CatalyzedFluxome>

java.lang.Object
  extended by sbrt.kernel.fba.proc.NetworkInfoProcess.Results<F>
Type Parameters:
F - the fluxome type.
Enclosing class:
NetworkInfoProcess<F extends CatalyzedFluxome>

public static class NetworkInfoProcess.Results<F extends CatalyzedFluxome>
extends java.lang.Object

This class is used to represent the information gathered about a fluxome.

Author:
This class was written and documented by Jeremiah Wright while in the Wagner lab.

Method Summary
 java.util.Map<java.lang.String,java.util.Set<java.lang.String>> getCatalystRxnAssoc()
          Returns the catalyst-reaction associations contained in the fluxome.
 java.util.Set<java.lang.String> getCatalysts()
          Returns the catalysts contained in the fluxome.
 java.util.Set<java.lang.String> getChemSpecies()
          Returns the metabolites contained in the fluxome.
 java.util.Collection<java.util.Set<java.lang.String>> getEquivRxns()
          Returns the equivalent reactions contained in the fluxome.
 java.util.Set<java.lang.String> getRxnNames()
          Returns the names of all reactions contained in the fluxome.
 SparseDoubleMatrix<java.lang.String,java.lang.String> getStoichMatrix()
          Returns the stoichiometry matrix of the fluxome.
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Method Detail

getChemSpecies

public java.util.Set<java.lang.String> getChemSpecies()
Returns the metabolites contained in the fluxome.

Returns:
the metabolites contained in the fluxome.

getRxnNames

public java.util.Set<java.lang.String> getRxnNames()
Returns the names of all reactions contained in the fluxome.

Returns:
the names of all reactions contained in the fluxome.

getCatalysts

public java.util.Set<java.lang.String> getCatalysts()
Returns the catalysts contained in the fluxome.

Returns:
the catalysts contained in the fluxome.

getEquivRxns

public java.util.Collection<java.util.Set<java.lang.String>> getEquivRxns()
Returns the equivalent reactions contained in the fluxome.

Returns:
the equivalent reactions contained in the fluxome.

getCatalystRxnAssoc

public java.util.Map<java.lang.String,java.util.Set<java.lang.String>> getCatalystRxnAssoc()
Returns the catalyst-reaction associations contained in the fluxome.

Returns:
catalysts mapped to the names of the reactions they catalyze.

getStoichMatrix

public SparseDoubleMatrix<java.lang.String,java.lang.String> getStoichMatrix()
Returns the stoichiometry matrix of the fluxome.

Returns:
the stoichiometry matrix of the fluxome.