SHOGUN
4.1.0
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class KernelLocallyLinearEmbedding used to construct embeddings of data using kernel formulation of Locally Linear Embedding algorithm as described in
Decoste, D. (2001). Visualizing Mercer Kernel Feature Spaces Via Kernelized Locally-Linear Embeddings. The 8th International Conference on Neural Information Processing ICONIP2001
It is optimized with the alignment formulation as described in
Zhao, D. (2006). Formulating LLE using alignment technique. Pattern Recognition, 39(11), 2233-2235. Retrieved from http://linkinghub.elsevier.com/retrieve/pii/S0031320306002160
Uses the Tapkee library code.
Definition at line 44 of file KernelLocallyLinearEmbedding.h.
Public Member Functions | |
CKernelLocallyLinearEmbedding () | |
CKernelLocallyLinearEmbedding (CKernel *kernel) | |
virtual | ~CKernelLocallyLinearEmbedding () |
virtual CFeatures * | apply (CFeatures *features) |
CDenseFeatures< float64_t > * | embed_kernel (CKernel *kernel) |
virtual const char * | get_name () const |
void | set_k (int32_t k) |
int32_t | get_k () const |
void | set_reconstruction_shift (float64_t reconstruction_shift) |
float64_t | get_reconstruction_shift () const |
void | set_nullspace_shift (float64_t nullspace_shift) |
float64_t | get_nullspace_shift () const |
virtual CDenseFeatures < float64_t > * | embed (CFeatures *features) |
void | set_target_dim (int32_t dim) |
int32_t | get_target_dim () const |
void | set_distance (CDistance *distance) |
CDistance * | get_distance () const |
void | set_kernel (CKernel *kernel) |
CKernel * | get_kernel () const |
virtual CSGObject * | shallow_copy () const |
virtual CSGObject * | deep_copy () const |
virtual bool | is_generic (EPrimitiveType *generic) const |
template<class T > | |
void | set_generic () |
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void | set_generic () |
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void | set_generic () |
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void | set_generic () |
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void | set_generic () |
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void | set_generic () |
template<> | |
void | set_generic () |
template<> | |
void | set_generic () |
template<> | |
void | set_generic () |
template<> | |
void | set_generic () |
template<> | |
void | set_generic () |
template<> | |
void | set_generic () |
template<> | |
void | set_generic () |
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void | set_generic () |
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void | set_generic () |
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void | set_generic () |
void | unset_generic () |
virtual void | print_serializable (const char *prefix="") |
virtual bool | save_serializable (CSerializableFile *file, const char *prefix="") |
virtual bool | load_serializable (CSerializableFile *file, const char *prefix="") |
void | set_global_io (SGIO *io) |
SGIO * | get_global_io () |
void | set_global_parallel (Parallel *parallel) |
Parallel * | get_global_parallel () |
void | set_global_version (Version *version) |
Version * | get_global_version () |
SGStringList< char > | get_modelsel_names () |
void | print_modsel_params () |
char * | get_modsel_param_descr (const char *param_name) |
index_t | get_modsel_param_index (const char *param_name) |
void | build_gradient_parameter_dictionary (CMap< TParameter *, CSGObject * > *dict) |
virtual void | update_parameter_hash () |
virtual bool | parameter_hash_changed () |
virtual bool | equals (CSGObject *other, float64_t accuracy=0.0, bool tolerant=false) |
virtual CSGObject * | clone () |
Public Attributes | |
SGIO * | io |
Parallel * | parallel |
Version * | version |
Parameter * | m_parameters |
Parameter * | m_model_selection_parameters |
Parameter * | m_gradient_parameters |
uint32_t | m_hash |
Protected Member Functions | |
void | init () |
HELPERS. More... | |
virtual void | load_serializable_pre () throw (ShogunException) |
virtual void | load_serializable_post () throw (ShogunException) |
virtual void | save_serializable_pre () throw (ShogunException) |
virtual void | save_serializable_post () throw (ShogunException) |
Protected Attributes | |
int32_t | m_k |
FIELDS. More... | |
float64_t | m_reconstruction_shift |
float64_t | m_nullspace_shift |
int32_t | m_target_dim |
CDistance * | m_distance |
CKernel * | m_kernel |
constructor
Definition at line 22 of file KernelLocallyLinearEmbedding.cpp.
CKernelLocallyLinearEmbedding | ( | CKernel * | kernel | ) |
constructor
kernel | kernel to be used |
Definition at line 27 of file KernelLocallyLinearEmbedding.cpp.
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destructor
Definition at line 38 of file KernelLocallyLinearEmbedding.cpp.
apply
Reimplemented from CLocallyLinearEmbedding.
Definition at line 42 of file KernelLocallyLinearEmbedding.cpp.
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Builds a dictionary of all parameters in SGObject as well of those of SGObjects that are parameters of this object. Dictionary maps parameters to the objects that own them.
dict | dictionary of parameters to be built. |
Definition at line 597 of file SGObject.cpp.
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Creates a clone of the current object. This is done via recursively traversing all parameters, which corresponds to a deep copy. Calling equals on the cloned object always returns true although none of the memory of both objects overlaps.
Definition at line 714 of file SGObject.cpp.
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virtualinherited |
A deep copy. All the instance variables will also be copied.
Definition at line 198 of file SGObject.cpp.
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embed given features, acts the same as apply, but returns DenseFeatures
features | features to embed |
Definition at line 35 of file EmbeddingConverter.cpp.
CDenseFeatures< float64_t > * embed_kernel | ( | CKernel * | kernel | ) |
embed kernel (kernel should be inited)
kernel | kernel to construct embed |
Definition at line 62 of file KernelLocallyLinearEmbedding.cpp.
Recursively compares the current SGObject to another one. Compares all registered numerical parameters, recursion upon complex (SGObject) parameters. Does not compare pointers!
May be overwritten but please do with care! Should not be necessary in most cases.
other | object to compare with |
accuracy | accuracy to use for comparison (optional) |
tolerant | allows linient check on float equality (within accuracy) |
Definition at line 618 of file SGObject.cpp.
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Definition at line 498 of file SGObject.cpp.
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Returns description of a given parameter string, if it exists. SG_ERROR otherwise
param_name | name of the parameter |
Definition at line 522 of file SGObject.cpp.
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Returns index of model selection parameter with provided index
param_name | name of model selection parameter |
Definition at line 535 of file SGObject.cpp.
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get name
Reimplemented from CLocallyLinearEmbedding.
Definition at line 33 of file KernelLocallyLinearEmbedding.cpp.
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getter for nullspace shift parameter
Definition at line 61 of file LocallyLinearEmbedding.cpp.
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getter for reconstruction shift parameter
Definition at line 71 of file LocallyLinearEmbedding.cpp.
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getter for target dimension
Definition at line 46 of file EmbeddingConverter.cpp.
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protectedinherited |
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virtualinherited |
If the SGSerializable is a class template then TRUE will be returned and GENERIC is set to the type of the generic.
generic | set to the type of the generic if returning TRUE |
Definition at line 296 of file SGObject.cpp.
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Load this object from file. If it will fail (returning FALSE) then this object will contain inconsistent data and should not be used!
file | where to load from |
prefix | prefix for members |
Definition at line 369 of file SGObject.cpp.
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protectedvirtualinherited |
Can (optionally) be overridden to post-initialize some member variables which are not PARAMETER::ADD'ed. Make sure that at first the overridden method BASE_CLASS::LOAD_SERIALIZABLE_POST is called.
ShogunException | will be thrown if an error occurs. |
Reimplemented in CKernel, CWeightedDegreePositionStringKernel, CList, CAlphabet, CLinearHMM, CGaussianKernel, CInverseMultiQuadricKernel, CCircularKernel, and CExponentialKernel.
Definition at line 426 of file SGObject.cpp.
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protectedvirtualinherited |
Can (optionally) be overridden to pre-initialize some member variables which are not PARAMETER::ADD'ed. Make sure that at first the overridden method BASE_CLASS::LOAD_SERIALIZABLE_PRE is called.
ShogunException | will be thrown if an error occurs. |
Reimplemented in CDynamicArray< T >, CDynamicArray< float64_t >, CDynamicArray< float32_t >, CDynamicArray< int32_t >, CDynamicArray< char >, CDynamicArray< bool >, and CDynamicObjectArray.
Definition at line 421 of file SGObject.cpp.
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Definition at line 262 of file SGObject.cpp.
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prints all parameter registered for model selection and their type
Definition at line 474 of file SGObject.cpp.
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prints registered parameters out
prefix | prefix for members |
Definition at line 308 of file SGObject.cpp.
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Save this object to file.
file | where to save the object; will be closed during returning if PREFIX is an empty string. |
prefix | prefix for members |
Definition at line 314 of file SGObject.cpp.
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protectedvirtualinherited |
Can (optionally) be overridden to post-initialize some member variables which are not PARAMETER::ADD'ed. Make sure that at first the overridden method BASE_CLASS::SAVE_SERIALIZABLE_POST is called.
ShogunException | will be thrown if an error occurs. |
Reimplemented in CKernel.
Definition at line 436 of file SGObject.cpp.
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protectedvirtualinherited |
Can (optionally) be overridden to pre-initialize some member variables which are not PARAMETER::ADD'ed. Make sure that at first the overridden method BASE_CLASS::SAVE_SERIALIZABLE_PRE is called.
ShogunException | will be thrown if an error occurs. |
Reimplemented in CKernel, CDynamicArray< T >, CDynamicArray< float64_t >, CDynamicArray< float32_t >, CDynamicArray< int32_t >, CDynamicArray< char >, CDynamicArray< bool >, and CDynamicObjectArray.
Definition at line 431 of file SGObject.cpp.
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setter for distance
distance | distance to set |
Definition at line 51 of file EmbeddingConverter.cpp.
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Definition at line 41 of file SGObject.cpp.
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Definition at line 46 of file SGObject.cpp.
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Definition at line 51 of file SGObject.cpp.
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Definition at line 56 of file SGObject.cpp.
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Definition at line 61 of file SGObject.cpp.
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Definition at line 66 of file SGObject.cpp.
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Definition at line 71 of file SGObject.cpp.
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Definition at line 76 of file SGObject.cpp.
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Definition at line 81 of file SGObject.cpp.
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Definition at line 86 of file SGObject.cpp.
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Definition at line 91 of file SGObject.cpp.
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Definition at line 96 of file SGObject.cpp.
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Definition at line 101 of file SGObject.cpp.
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Definition at line 106 of file SGObject.cpp.
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Definition at line 111 of file SGObject.cpp.
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set generic type to T
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set the parallel object
parallel | parallel object to use |
Definition at line 241 of file SGObject.cpp.
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set the version object
version | version object to use |
Definition at line 283 of file SGObject.cpp.
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setter for k parameter
k | k value |
Definition at line 45 of file LocallyLinearEmbedding.cpp.
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setter for kernel
kernel | kernel to set |
Definition at line 64 of file EmbeddingConverter.cpp.
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setter for nullspace shift parameter
nullspace_shift | nullsapce shift value |
Definition at line 56 of file LocallyLinearEmbedding.cpp.
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setter for reconstruction shift parameter
reconstruction_shift | reconstruction shift value |
Definition at line 66 of file LocallyLinearEmbedding.cpp.
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setter for target dimension
dim | target dimension |
Definition at line 40 of file EmbeddingConverter.cpp.
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virtualinherited |
A shallow copy. All the SGObject instance variables will be simply assigned and SG_REF-ed.
Reimplemented in CGaussianKernel.
Definition at line 192 of file SGObject.cpp.
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unset generic type
this has to be called in classes specializing a template class
Definition at line 303 of file SGObject.cpp.
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Updates the hash of current parameter combination
Definition at line 248 of file SGObject.cpp.
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io
Definition at line 369 of file SGObject.h.
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distance to be used
Definition at line 99 of file EmbeddingConverter.h.
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parameters wrt which we can compute gradients
Definition at line 384 of file SGObject.h.
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Hash of parameter values
Definition at line 387 of file SGObject.h.
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kernel to be used
Definition at line 102 of file EmbeddingConverter.h.
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model selection parameters
Definition at line 381 of file SGObject.h.
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regularization shift of nullspace finding step
Definition at line 111 of file LocallyLinearEmbedding.h.
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parameters
Definition at line 378 of file SGObject.h.
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regularization shift of reconstruction step
Definition at line 108 of file LocallyLinearEmbedding.h.
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target dim of dimensionality reduction preprocessor
Definition at line 96 of file EmbeddingConverter.h.
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parallel
Definition at line 372 of file SGObject.h.
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version
Definition at line 375 of file SGObject.h.