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Packages that use DoubleMatrix | |
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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 |
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Methods in sbrt.kernel.fba.comp with parameters of type DoubleMatrix | |
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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 | |
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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 |
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Method parameters in sbrt.kernel.fba.proc with type arguments of type DoubleMatrix | |
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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 |
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Subinterfaces of DoubleMatrix in sbrt.kernel.math.algebra | |
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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 | |
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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 | |
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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 | |
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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 | |
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DoubleMatrixWrap(DoubleMatrix<R,C> m)
Constructs a new wrapper around the provided matrix. |
Uses of DoubleMatrix in sbrt.shell.mng.fba |
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Methods in sbrt.shell.mng.fba with parameters of type DoubleMatrix | |
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void |
ExtremeCurrentManager.Rm.addData(DoubleMatrix<?,java.lang.String> results)
Adds data to this results manager. |
Uses of DoubleMatrix in sbrt.shell.proc.fba |
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Methods in sbrt.shell.proc.fba that return DoubleMatrix | |
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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. |
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