CTensorProductPairKernel Class Reference

Detailed Description

Computes the Tensor Product Pair Kernel (TPPK).

Formally, it computes

\[ k_{\mbox{tppk}}(({\bf a},{\bf b}), ({\bf c},{\bf d}))= k({\bf a}, {\bf c})\cdot k({\bf b}, {\bf c}) + k({\bf a},{\bf d})\cdot k({\bf b}, {\bf c}) \]

It is defined on pairs of inputs and a subkernel $k$. The subkernel has to be given on initialization. The pairs are specified via indizes (ab)using 2-dimensional integer features.

Its feature space $\Phi_{\mbox{tppk}}$ is the tensor product of the feature spaces of the subkernel $k(.,.)$ on its input.

It is often used in bioinformatics, e.g., to predict protein-protein interactions.

Definition at line 35 of file TensorProductPairKernel.h.

Inheritance diagram for CTensorProductPairKernel:
Inheritance graph
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List of all members.

Public Member Functions

 CTensorProductPairKernel (int32_t size, CKernel *subkernel)
 CTensorProductPairKernel (CSimpleFeatures< int32_t > *l, CSimpleFeatures< int32_t > *r, CKernel *subkernel)
virtual ~CTensorProductPairKernel ()
virtual bool init (CFeatures *l, CFeatures *r)
virtual bool load_init (FILE *src)
virtual bool save_init (FILE *dest)
virtual EKernelType get_kernel_type ()
virtual const char * get_name () const

Protected Member Functions

virtual float64_t compute (int32_t idx_a, int32_t idx_b)

Protected Attributes

CKernel * subkernel

Constructor & Destructor Documentation

CTensorProductPairKernel::CTensorProductPairKernel ( int32_t  size,
CKernel *  subkernel 
)

constructor

Parameters:
size cache size
subkernel the subkernel

Definition at line 17 of file TensorProductPairKernel.cpp.

CTensorProductPairKernel::CTensorProductPairKernel ( CSimpleFeatures< int32_t > *  l,
CSimpleFeatures< int32_t > *  r,
CKernel *  subkernel 
)

constructor

Parameters:
l features of left-hand side
r features of right-hand side
subkernel the subkernel

Definition at line 23 of file TensorProductPairKernel.cpp.

CTensorProductPairKernel::~CTensorProductPairKernel (  )  [virtual]

Definition at line 30 of file TensorProductPairKernel.cpp.

Member Function Documentation

float64_t CTensorProductPairKernel::compute ( int32_t  idx_a,
int32_t  idx_b 
) [protected, virtual]

compute kernel function for features a and b idx_{a,b} denote the index of the feature vectors in the corresponding feature object

Parameters:
idx_a index a
idx_b index b
Returns:
computed kernel function at indices a,b

Implements CKernel.

Definition at line 53 of file TensorProductPairKernel.cpp.

virtual EKernelType CTensorProductPairKernel::get_kernel_type (  )  [virtual]

return what type of kernel we are

Returns:
kernel type TPPK

Implements CKernel.

Definition at line 81 of file TensorProductPairKernel.h.

virtual const char* CTensorProductPairKernel::get_name (  )  const [virtual]

return the kernel's name

Returns:
name TPPK

Implements CSGObject.

Definition at line 87 of file TensorProductPairKernel.h.

bool CTensorProductPairKernel::init ( CFeatures *  l,
CFeatures *  r 
) [virtual]

initialize kernel

Parameters:
l features of left-hand side
r features of right-hand side
Returns:
if initializing was successful

Reimplemented from CSimpleKernel< int32_t >.

Definition at line 36 of file TensorProductPairKernel.cpp.

bool CTensorProductPairKernel::load_init ( FILE *  src  )  [virtual]

load kernel init_data

Parameters:
src file to load from
Returns:
if loading was successful

Implements CKernel.

Definition at line 43 of file TensorProductPairKernel.cpp.

bool CTensorProductPairKernel::save_init ( FILE *  dest  )  [virtual]

save kernel init_data

Parameters:
dest file to save to
Returns:
if saving was successful

Implements CKernel.

Definition at line 48 of file TensorProductPairKernel.cpp.

Member Data Documentation

CKernel* CTensorProductPairKernel::subkernel [protected]

the subkernel

Definition at line 102 of file TensorProductPairKernel.h.

The documentation for this class was generated from the following files:
SHOGUN Machine Learning Toolbox - Documentation