Uses of Interface
sbrt.kernel.math.algebra.DoubleMatrix

Packages that use DoubleMatrix
sbrt.kernel.fba.comp Provides classes and interfaces for performing Flux Balance Analysis computations. 
sbrt.kernel.fba.proc Provides classes and interfaces for executing Flux Balance Analysis processes. 
sbrt.kernel.math.algebra Provides classes and interfaces for creating objects relevant to algebra. 
sbrt.shell.mng.fba Provides classes and interfaces for creating Flux Balance Analysis process managers. 
sbrt.shell.proc.fba Provides classes for converting FBA-related files of different formats. 
 

Uses of DoubleMatrix in sbrt.kernel.fba.comp
 

Methods in sbrt.kernel.fba.comp with parameters of type DoubleMatrix
 void FbaOptimizer.setMatrixElements(DoubleMatrix<?,?> elements)
          Sets the specified elements of the program matrix to those provided.
 

Constructors in sbrt.kernel.fba.comp with parameters of type DoubleMatrix
FluxCapComputer(IrrevRxnFluxome fluxome, DoubleMatrix<?,java.lang.String> cycleMatrix)
          Constructs a new flux cap computer from the cycles contained in the provided fluxome.
 

Uses of DoubleMatrix in sbrt.kernel.fba.proc
 

Method parameters in sbrt.kernel.fba.proc with type arguments of type DoubleMatrix
 void CycleIdProcess.run(ResultsManager<DoubleMatrix<?,java.lang.String>> resultsManager)
          Runs this process and adds the generated results to the provided results manager via its ResultsManager.addData(Object) method.
 void ExtremeCurrentProcess.run(ResultsManager<DoubleMatrix<?,java.lang.String>> resultsManager)
          Runs this process and adds the generated results to the provided results manager via its ResultsManager.addData(Object) method.
 

Uses of DoubleMatrix in sbrt.kernel.math.algebra
 

Subinterfaces of DoubleMatrix in sbrt.kernel.math.algebra
 interface DoubleMatrixBuilder<R,C>
          This interface is used to represent mutable matrices whose elements are strictly double precision numbers.
 interface SmdMatrix<R,C>
          This interface is used to represent sparse mutable matrices containing strictly double precision numbers as elements.
 interface SparseDoubleMatrix<R,C>
          This interface is used to represent sparse matrices whose elements are strictly double precision numbers.
 

Classes in sbrt.kernel.math.algebra that implement DoubleMatrix
 class AbstractMdMatrix<R,C>
          This abstract class is a skeleton implementation of DoubleMatrixBuilder.
 class AbstractSmdMatrix<R,C>
          This abstract class is a skeleton implementation of SmdMatrix.
 class DoubleMatrixWrap<R,C>
          This class is used to wrap mutable matrices as an immutable DoubleMatrix.
 class HashMatrix<R,C>
          This class is a java.util.LinkedHashMap based implementation of SmdMatrix.
 class RowOrTreeMatrix<R extends Comparable<? super R>,C extends Comparable<? super C>>
          This class is a java.util.TreeMap based implementation of SmdMatrix.
 class SparseDoubleMatrixWrap<R,C>
          This class is used to wrap mutable matrices as an immutable SparseDoubleMatrix.
 class TreeMatrix<R extends Comparable<? super R>,C extends Comparable<? super C>>
          This class is a java.util.TreeMap based implementation of SmdMatrix.
 

Methods in sbrt.kernel.math.algebra that return DoubleMatrix
 DoubleMatrix<R,C> DoubleMatrixWrap.getColumn(java.lang.Object columnIndex)
          Returns the column corresponding to the provided column index.
 DoubleMatrix<R,C> DoubleMatrix.getColumn(java.lang.Object columnIndex)
          Returns the column corresponding to the provided column index.
 DoubleMatrix<R,C> DoubleMatrixWrap.getRow(java.lang.Object rowIndex)
          Returns the row corresponding to the provided row index.
 DoubleMatrix<R,C> DoubleMatrix.getRow(java.lang.Object rowIndex)
          Returns the row corresponding to the provided row index.
 

Methods in sbrt.kernel.math.algebra with parameters of type DoubleMatrix
 void AbstractMdMatrix.setElements(DoubleMatrix<? extends R,? extends C> m)
          Sets the corresponding elements of this matrix to those of the provided matrix.
 void DoubleMatrixBuilder.setElements(DoubleMatrix<? extends R,? extends C> m)
          Sets the corresponding elements of this matrix to those of the provided matrix.
 

Constructors in sbrt.kernel.math.algebra with parameters of type DoubleMatrix
DoubleMatrixWrap(DoubleMatrix<R,C> m)
          Constructs a new wrapper around the provided matrix.
 

Uses of DoubleMatrix in sbrt.shell.mng.fba
 

Methods in sbrt.shell.mng.fba with parameters of type DoubleMatrix
 void ExtremeCurrentManager.Rm.addData(DoubleMatrix<?,java.lang.String> results)
          Adds data to this results manager.
 

Uses of DoubleMatrix in sbrt.shell.proc.fba
 

Methods in sbrt.shell.proc.fba that return DoubleMatrix
 DoubleMatrix<java.lang.String,java.lang.String> MetatoolOutputReader.getElementaryModes(InputFile<java.lang.String> file, java.util.List<java.lang.String> orderedRxnNames)
          Returns the elementary mode matrix contained in the provided Metatool output file.