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Packages that use SparseDoubleMatrix | |
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sbrt.kernel.fba | Provides classes and interfaces for creating objects relevant to Flux Balance Analysis. |
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.io | Provides classes and interfaces for reading and writing files. |
Uses of SparseDoubleMatrix in sbrt.kernel.fba |
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Methods in sbrt.kernel.fba that return SparseDoubleMatrix | |
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SparseDoubleMatrix<java.lang.String,java.lang.String> |
MixedFluxomeV1.getStoichMatrix()
Returns the stoichiometry matrix of this fluxome. |
SparseDoubleMatrix<java.lang.String,java.lang.String> |
Fluxome.getStoichMatrix()
Returns the stoichiometry matrix of this fluxome. |
SparseDoubleMatrix<java.lang.String,java.lang.String> |
IrrevRxnFluxomeV1.getStoichMatrix()
Returns the stoichiometry matrix of this fluxome. |
Uses of SparseDoubleMatrix in sbrt.kernel.fba.comp |
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Methods in sbrt.kernel.fba.comp that return SparseDoubleMatrix | |
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SparseDoubleMatrix<?,java.lang.String> |
CycleComputer.getCycles(F fluxome)
Returns the set of all steady state cycles contained in the provided fluxome. |
SparseDoubleMatrix<?,java.lang.String> |
SlpCycleComputer.getCycles(IrrevRxnFluxome fluxome)
Returns the set of all steady state cycles contained in the provided fluxome. |
SparseDoubleMatrix<?,java.lang.String> |
SlpExCurrComputerV2.getMatrix(IrrevRxnFluxome fluxome)
Returns the extreme current matrix for the provided fluxome. |
SparseDoubleMatrix<?,java.lang.String> |
ExtremeCurrentComputer.getMatrix(IrrevRxnFluxome fluxome)
Returns the extreme current matrix for the provided fluxome. |
SparseDoubleMatrix<?,java.lang.String> |
SlpExCurrComputerV2.getMatrix(IrrevRxnFluxome fluxome,
MutableProgressMonitor pm)
Returns the extreme current matrix for the provided fluxome. |
SparseDoubleMatrix<?,java.lang.String> |
ExtremeCurrentComputer.getMatrix(IrrevRxnFluxome fluxome,
MutableProgressMonitor pm)
Returns the extreme current matrix for the provided fluxome. |
Uses of SparseDoubleMatrix in sbrt.kernel.fba.proc |
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Methods in sbrt.kernel.fba.proc that return SparseDoubleMatrix | |
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SparseDoubleMatrix<java.lang.String,java.lang.String> |
NetworkInfoProcess.Results.getStoichMatrix()
Returns the stoichiometry matrix of the fluxome. |
Uses of SparseDoubleMatrix in sbrt.kernel.math.algebra |
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Subinterfaces of SparseDoubleMatrix in sbrt.kernel.math.algebra | |
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interface |
SmdMatrix<R,C>
This interface is used to represent sparse mutable matrices containing strictly double precision numbers as elements. |
Classes in sbrt.kernel.math.algebra that implement SparseDoubleMatrix | |
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class |
AbstractSmdMatrix<R,C>
This abstract class is a skeleton implementation of SmdMatrix. |
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 SparseDoubleMatrix | |
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SparseDoubleMatrix<R,C> |
SparseDoubleMatrix.getColumn(java.lang.Object columnIndex)
Returns the column corresponding to the provided column index. |
SparseDoubleMatrix<R,C> |
SparseDoubleMatrixWrap.getColumn(java.lang.Object columnIndex)
Returns the column corresponding to the provided column index. |
SparseDoubleMatrix<R,C> |
SparseDoubleMatrix.getRow(java.lang.Object rowIndex)
Returns the row corresponding to the provided row index. |
SparseDoubleMatrix<R,C> |
SparseDoubleMatrixWrap.getRow(java.lang.Object rowIndex)
Returns the row corresponding to the provided row index. |
Methods in sbrt.kernel.math.algebra with parameters of type SparseDoubleMatrix | ||
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MatrixMultiplier.multiply(SparseDoubleMatrix<R,C> matrixA,
SparseDoubleMatrix<C,T> matrixB,
DoubleMatrixBuilder<R,T> product)
Fills product with matrixA * matrixB . |
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MatrixMultiplier.multiply(SparseDoubleMatrix<R,C> matrixA,
SparseDoubleMatrix<C,T> matrixB,
DoubleMatrixBuilder<R,T> product)
Fills product with matrixA * matrixB . |
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void |
SmdMatrix.setElements(SparseDoubleMatrix<? extends R,? extends C> m)
Sets the corresponding elements of this matrix to those of the provided matrix. |
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void |
AbstractSmdMatrix.setElements(SparseDoubleMatrix<? 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 SparseDoubleMatrix | |
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SparseDoubleMatrixWrap(SparseDoubleMatrix<R,C> m)
Constructs a new wrapper around the provided matrix. |
Uses of SparseDoubleMatrix in sbrt.shell.io |
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Methods in sbrt.shell.io that return SparseDoubleMatrix | |
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static SparseDoubleMatrix<java.lang.Integer,java.lang.String> |
ComiFile.getMatrix(ComiFile<java.lang.String,java.lang.Double> file)
Reads the provided column-oriented map input file and returns its contents as a sparse matrix. |
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