The Weighted Degree String kernel.
The WD kernel of order d compares two sequences \({\bf x}\) and \({\bf x'}\) of length L by summing all contributions of k-mer matches of lengths \(k\in\{1,\dots,d\}\), weighted by coefficients \(\beta_k\). It is defined as
\[ k({\bf x},{\bf x'})=\sum_{k=1}^d\beta_k\sum_{l=1}^{L-k+1}I({\bf u}_{k,l}({\bf x})={\bf u}_{k,l}({\bf x'})). \]
Here, \({\bf u}_{k,l}({\bf x})\) is the string of length k starting at position l of the sequence \({\bf x}\) and \(I(\cdot)\) is the indicator function which evaluates to 1 when its argument is true and to 0 otherwise.
在文件 WeightedDegreeStringKernel.h 第 55 行定义.
静态 Public 成员函数 | |
static void * | compute_batch_helper (void *p) |
static CKernel * | obtain_from_generic (CSGObject *kernel) |
Public 属性 | |
SGIO * | io |
Parallel * | parallel |
Version * | version |
Parameter * | m_parameters |
Parameter * | m_model_selection_parameters |
Parameter * | m_gradient_parameters |
uint32_t | m_hash |
Protected 成员函数 | |
void | create_empty_tries () |
void | add_example_to_tree (int32_t idx, float64_t weight) |
void | add_example_to_single_tree (int32_t idx, float64_t weight, int32_t tree_num) |
void | add_example_to_tree_mismatch (int32_t idx, float64_t weight) |
void | add_example_to_single_tree_mismatch (int32_t idx, float64_t weight, int32_t tree_num) |
float64_t | compute_by_tree (int32_t idx) |
float64_t | compute (int32_t idx_a, int32_t idx_b) |
float64_t | compute_with_mismatch (char *avec, int32_t alen, char *bvec, int32_t blen) |
float64_t | compute_without_mismatch (char *avec, int32_t alen, char *bvec, int32_t blen) |
float64_t | compute_without_mismatch_matrix (char *avec, int32_t alen, char *bvec, int32_t blen) |
float64_t | compute_using_block (char *avec, int32_t alen, char *bvec, int32_t blen) |
virtual void | remove_lhs () |
void | set_property (EKernelProperty p) |
void | unset_property (EKernelProperty p) |
void | set_is_initialized (bool p_init) |
int32_t | compute_row_start (int64_t offs, int32_t n, bool symmetric) |
virtual void | load_serializable_post () throw (ShogunException) |
virtual void | save_serializable_pre () throw (ShogunException) |
virtual void | save_serializable_post () throw (ShogunException) |
virtual void | register_params () |
virtual void | load_serializable_pre () throw (ShogunException) |
静态 Protected 成员函数 | |
template<class T > | |
static void * | get_kernel_matrix_helper (void *p) |
Protected 属性 | |
float64_t * | weights |
int32_t | weights_degree |
int32_t | weights_length |
float64_t * | position_weights |
int32_t | position_weights_len |
float64_t * | weights_buffer |
int32_t | mkl_stepsize |
int32_t | degree |
int32_t | length |
int32_t | max_mismatch |
int32_t | seq_length |
bool | initialized |
bool | block_computation |
float64_t * | block_weights |
EWDKernType | type |
int32_t | which_degree |
CTrie< DNATrie > * | tries |
bool | tree_initialized |
CAlphabet * | alphabet |
int32_t | cache_size |
cache_size in MB 更多... | |
KERNEL_CACHE | kernel_cache |
kernel cache 更多... | |
KERNELCACHE_ELEM * | kernel_matrix |
CFeatures * | lhs |
feature vectors to occur on left hand side 更多... | |
CFeatures * | rhs |
feature vectors to occur on right hand side 更多... | |
bool | lhs_equals_rhs |
lhs 更多... | |
int32_t | num_lhs |
number of feature vectors on left hand side 更多... | |
int32_t | num_rhs |
number of feature vectors on right hand side 更多... | |
float64_t | combined_kernel_weight |
bool | optimization_initialized |
EOptimizationType | opt_type |
uint64_t | properties |
CKernelNormalizer * | normalizer |
default constructor
在文件 WeightedDegreeStringKernel.cpp 第 48 行定义.
CWeightedDegreeStringKernel | ( | int32_t | degree, |
EWDKernType | type = E_WD |
||
) |
constructor
degree | degree |
type | weighted degree kernel type |
在文件 WeightedDegreeStringKernel.cpp 第 55 行定义.
CWeightedDegreeStringKernel | ( | SGVector< float64_t > | weights | ) |
CWeightedDegreeStringKernel | ( | CStringFeatures< char > * | l, |
CStringFeatures< char > * | r, | ||
int32_t | degree | ||
) |
constructor
l | features of left-hand side |
r | features of right-hand side |
degree | degree |
在文件 WeightedDegreeStringKernel.cpp 第 84 行定义.
|
virtual |
在文件 WeightedDegreeStringKernel.cpp 第 96 行定义.
|
protected |
add example to single tree
idx | index |
weight | weight |
tree_num | which tree |
在文件 WeightedDegreeStringKernel.cpp 第 435 行定义.
|
protected |
add example to single tree mismatch
idx | index |
weight | weight |
tree_num | which tree |
在文件 WeightedDegreeStringKernel.cpp 第 486 行定义.
|
protected |
|
protected |
|
virtual |
add to normal
idx | where to add |
weight | what to add |
重载 CKernel .
在文件 WeightedDegreeStringKernel.h 第 214 行定义.
|
inherited |
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. |
在文件 SGObject.cpp 第 597 行定义.
|
inherited |
|
inherited |
|
virtual |
|
virtual |
|
virtualinherited |
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.
在文件 SGObject.cpp 第 714 行定义.
|
protectedvirtual |
compute kernel function for features a and b idx_{a,b} denote the index of the feature vectors in the corresponding feature object
idx_a | index a |
idx_b | index b |
实现了 CKernel.
在文件 WeightedDegreeStringKernel.cpp 第 363 行定义.
float64_t * compute_abs_weights | ( | int32_t & | len | ) |
|
virtual |
compute batch
num_vec | number of vectors |
vec_idx | vector index |
target | target |
num_suppvec | number of support vectors |
IDX | IDX |
alphas | alphas |
factor | factor |
重载 CKernel .
在文件 WeightedDegreeStringKernel.cpp 第 862 行定义.
|
static |
|
virtual |
compute by subkernel
idx | index |
subkernel_contrib | subkernel contribution |
重载 CKernel .
在文件 WeightedDegreeStringKernel.h 第 248 行定义.
void compute_by_tree | ( | int32_t | idx, |
float64_t * | LevelContrib | ||
) |
compute by tree
idx | index |
LevelContrib | level contribution |
在文件 WeightedDegreeStringKernel.cpp 第 538 行定义.
|
protected |
|
virtual |
compute optimized
idx | index to compute |
重载 CKernel .
在文件 WeightedDegreeStringKernel.h 第 163 行定义.
|
protectedinherited |
|
protected |
compute using block
avec | vector a |
alen | length of vector a |
bvec | vector b |
blen | length of vector b |
在文件 WeightedDegreeStringKernel.cpp 第 290 行定义.
|
protected |
compute with mismatch
avec | vector a |
alen | length of vector a |
bvec | vector b |
blen | length of vector b |
在文件 WeightedDegreeStringKernel.cpp 第 262 行定义.
|
protected |
compute without mismatch
avec | vector a |
alen | length of vector a |
bvec | vector b |
blen | length of vector b |
在文件 WeightedDegreeStringKernel.cpp 第 316 行定义.
|
protected |
compute without mismatch matrix
avec | vector a |
alen | length of vector a |
bvec | vector b |
blen | length of vector b |
在文件 WeightedDegreeStringKernel.cpp 第 339 行定义.
|
protected |
create emtpy tries
在文件 WeightedDegreeStringKernel.cpp 第 127 行定义.
|
virtualinherited |
A deep copy. All the instance variables will also be copied.
在文件 SGObject.cpp 第 198 行定义.
|
virtual |
delete optimization
重载 CKernel .
在文件 WeightedDegreeStringKernel.cpp 第 248 行定义.
bool delete_position_weights | ( | ) |
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) |
在文件 SGObject.cpp 第 618 行定义.
|
inherited |
|
inherited |
|
inherited |
int32_t get_degree | ( | ) | const |
float64_t* get_degree_weights | ( | int32_t & | d, |
int32_t & | len | ||
) |
get degree weights
d | degree weights will be stored here |
len | number of degree weights will be stored here |
在文件 WeightedDegreeStringKernel.h 第 390 行定义.
|
virtualinherited |
return feature class the kernel can deal with
实现了 CKernel.
在文件 StringKernel.h 第 71 行定义.
|
virtualinherited |
|
inherited |
|
inherited |
|
inherited |
|
inherited |
|
inherited |
|
staticprotectedinherited |
helper for computing the kernel matrix in a parallel way
p | thread parameters |
在文件 Kernel.cpp 第 1292 行定义.
|
inherited |
get kernel row
docnum | docnum |
active2dnum | active2dnum |
buffer | buffer |
full_line | full line |
在文件 Kernel.cpp 第 238 行定义.
|
virtual |
return what type of kernel we are
在文件 WeightedDegreeStringKernel.h 第 116 行定义.
|
inherited |
|
inherited |
|
inherited |
int32_t get_max_mismatch | ( | ) | const |
int32_t get_mkl_stepsize | ( | ) |
|
inherited |
在文件 SGObject.cpp 第 498 行定义.
|
inherited |
Returns description of a given parameter string, if it exists. SG_ERROR otherwise
param_name | name of the parameter |
在文件 SGObject.cpp 第 522 行定义.
|
inherited |
Returns index of model selection parameter with provided index
param_name | name of model selection parameter |
在文件 SGObject.cpp 第 535 行定义.
|
virtual |
|
virtualinherited |
|
virtual |
get number of subkernels
重载 CKernel .
在文件 WeightedDegreeStringKernel.h 第 232 行定义.
|
virtualinherited |
|
virtualinherited |
|
inherited |
|
virtualinherited |
return derivative with respect to specified parameter
param | the parameter |
index | the index of the element if parameter is a vector |
被 CCombinedKernel, CProductKernel, CGaussianKernel , 以及 CPeriodicKernel 重载.
|
virtualinherited |
float64_t* get_position_weights | ( | int32_t & | len | ) |
get position weights
len | number of position weights will be stored here |
在文件 WeightedDegreeStringKernel.h 第 425 行定义.
|
inherited |
|
virtual |
get subkernel weights
num_weights | number of weights will be stored here |
重载 CKernel .
在文件 WeightedDegreeStringKernel.h 第 270 行定义.
get subkernel weights (swig compatible)
被 CCombinedKernel 重载.
在文件 Kernel.cpp 第 880 行定义.
EWDKernType get_type | ( | ) | const |
bool get_use_block_computation | ( | ) |
check if block computation is performed
在文件 WeightedDegreeStringKernel.h 第 569 行定义.
float64_t* get_weights | ( | int32_t & | num_weights | ) |
get weights
num_weights | number of weights will be stored here |
在文件 WeightedDegreeStringKernel.h 第 402 行定义.
int32_t get_which_degree | ( | ) |
|
virtualinherited |
test whether features have been assigned to lhs and rhs
被 CCustomKernel, CCombinedKernel , 以及 CProductKernel 重载.
|
inherited |
initialize kernel
l | features of left-hand side |
r | features of right-hand side |
在文件 WeightedDegreeStringKernel.cpp 第 140 行定义.
bool init_block_weights | ( | ) |
initialize block weights
在文件 WeightedDegreeStringKernel.cpp 第 801 行定义.
bool init_block_weights_const | ( | ) |
initialize block weights constant
在文件 WeightedDegreeStringKernel.cpp 第 725 行定义.
bool init_block_weights_cubicpoly | ( | ) |
initialize block weights cubic polynomial
在文件 WeightedDegreeStringKernel.cpp 第 760 行定义.
bool init_block_weights_exp | ( | ) |
initialize block weights exponential
在文件 WeightedDegreeStringKernel.cpp 第 773 行定义.
bool init_block_weights_from_wd | ( | ) |
initialize block weights from weighted degree
在文件 WeightedDegreeStringKernel.cpp 第 684 行定义.
bool init_block_weights_from_wd_external | ( | ) |
initialize block weights from external weighted degree
在文件 WeightedDegreeStringKernel.cpp 第 701 行定义.
bool init_block_weights_linear | ( | ) |
initialize block weights linear
在文件 WeightedDegreeStringKernel.cpp 第 735 行定义.
bool init_block_weights_log | ( | ) |
initialize block weights logarithmic
在文件 WeightedDegreeStringKernel.cpp 第 787 行定义.
bool init_block_weights_sqpoly | ( | ) |
initialize block weights squared polynomial
在文件 WeightedDegreeStringKernel.cpp 第 746 行定义.
|
virtualinherited |
|
virtual |
initialize optimization
count | count |
IDX | index |
alphas | alphas |
重载 CKernel .
在文件 WeightedDegreeStringKernel.h 第 133 行定义.
|
virtual |
initialize optimization do initialization for tree_num up to upto_tree, use tree_num=-1 to construct all trees
count | count |
IDX | IDX |
alphas | alphas |
tree_num | which tree |
在文件 WeightedDegreeStringKernel.cpp 第 206 行定义.
|
inherited |
|
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 |
在文件 SGObject.cpp 第 296 行定义.
bool is_tree_initialized | ( | ) |
|
inherited |
|
inherited |
|
inherited |
cleanup kernel cache
在文件 Kernel.cpp 第 567 行定义.
|
inherited |
initialize kernel cache
size | size to initialize to |
regression_hack | if hack for regression shall be applied |
在文件 Kernel.cpp 第 181 行定义.
|
inherited |
kernel cache reset lru
在文件 Kernel.cpp 第 554 行定义.
|
inherited |
|
inherited |
|
inherited |
|
inherited |
list kernel
在文件 Kernel.cpp 第 708 行定义.
|
inherited |
|
virtualinherited |
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 |
在文件 SGObject.cpp 第 369 行定义.
|
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 occurres. |
重载 CSGObject .
被 CWeightedDegreePositionStringKernel, CGaussianKernel, CInverseMultiQuadricKernel, CCircularKernel , 以及 CExponentialKernel 重载.
在文件 Kernel.cpp 第 928 行定义.
|
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. |
被 CDynamicArray< T >, CDynamicArray< float64_t >, CDynamicArray< float32_t >, CDynamicArray< int32_t >, CDynamicArray< char >, CDynamicArray< bool > , 以及 CDynamicObjectArray 重载.
在文件 SGObject.cpp 第 421 行定义.
Obtains a kernel from a generic SGObject with error checking. Note that if passing NULL, result will be NULL
kernel | Object to cast to CKernel, is not SG_REFed |
在文件 Kernel.cpp 第 896 行定义.
|
virtualinherited |
在文件 SGObject.cpp 第 262 行定义.
|
inherited |
prints all parameter registered for model selection and their type
在文件 SGObject.cpp 第 474 行定义.
|
virtualinherited |
|
protectedvirtualinherited |
Separate the function of parameter registration This can be the first stage of a general framework for cross-validation or other parameter-based operations
被 CSpectrumMismatchRBFKernel, CSNPStringKernel, CANOVAKernel, CSubsequenceStringKernel, CGaussianMatchStringKernel, CGaussianShortRealKernel, CTensorProductPairKernel, CDistanceKernel , 以及 CHistogramIntersectionKernel 重载.
在文件 Kernel.cpp 第 951 行定义.
|
protectedvirtual |
|
virtualinherited |
|
virtualinherited |
takes all necessary steps if the rhs is removed from kernel
remove rhs from kernel
被 CCombinedKernel, CCommUlongStringKernel , 以及 CProductKernel 重载.
在文件 Kernel.cpp 第 693 行定义.
|
inherited |
|
virtualinherited |
Computes row-wise/col-wise sum of kernel values. This method is useful while computing statistical estimation of mean/variance over kernel values but the kernel matrix is too huge to be fit inside memory.
block_begin_row | the row index at which the block starts |
block_begin_col | the col index at which the block starts |
block_size_row | the number of rows in the block |
block_size_col | the number of cols in the block |
For Example, block_begin_row 0, block_begin_col 4 and block_size_row 5, block_size_col 6 represents the block that starts at index (0,4) in the kernel matrix and goes upto (0+5-1,4+6-1) i.e. (4,9) both inclusive
no_diag | if true (default is false), the diagonal elements are excluded from the row/col-wise sum, provided that block_size_row and block_size_col are same (i.e. the block is square). Otherwise, these are always added |
\[ v[i]=\sum_{j}k(i+\text{block-begin-row}, j+\text{block-begin-col}) \]
and rest block_size_col entries col-wise sum of kernel values computed as\[ v[\text{block-size-row}+j]=\sum_{i}k(i+\text{block-begin-row}, j+\text{block-begin-col}) \]
where \(i\in[0,\text{block-size-row}-1]\) and \(j\in[0,\text{block-size-col}-1]\)在文件 Kernel.cpp 第 1238 行定义.
|
virtualinherited |
Computes row-wise/col-wise sum and squared sum of kernel values from a symmetric part of the kernel matrix that always is supposed to contain the main upper diagonal. This method is useful while computing statistical estimation of mean/variance over kernel values but the kernel matrix is too huge to be fit inside memory.
block_begin | the row and col index at which the block starts |
block_size | the number of rows and cols in the block |
For Example, block_begin 4 and block_size 5 represents the block that starts at index (4,4) in the kernel matrix and goes upto (4+5-1,4+5-1) i.e. (8,8) both inclusive
no_diag | if true (default), the diagonal elements are excluded from the row/col-wise sum |
\[ v_0[i]=\sum_{j}k(i+\text{block-begin}, j+\text{block-begin}) \]
and second column contains the row-wise sum of squared kernel values\[ v_1[i]=\sum_{j}^k^2(i+\text{block-begin}, j+\text{block-begin}) \]
where \(i,j\in[0,\text{block-size}-1]\)在文件 Kernel.cpp 第 1179 行定义.
|
virtualinherited |
Computes row-wise/col-wise sum from a symmetric part of the kernel matrix that always is supposed to contain the main upper diagonal. This method is useful while computing statistical estimation of mean/variance over kernel values but the kernel matrix is too huge to be fit inside memory.
block_begin | the row and col index at which the block starts |
block_size | the number of rows and cols in the block |
For Example, block_begin 4 and block_size 5 represents the block that starts at index (4,4) in the kernel matrix and goes upto (4+5-1,4+5-1) i.e. (8,8) both inclusive
no_diag | if true (default), the diagonal elements are excluded from the row/col-wise sum |
\[ v[i]=\sum_{j}k(i+\text{block-begin}, j+\text{block-begin}) \]
where \(i,j\in[0,\text{block-size}-1]\)在文件 Kernel.cpp 第 1125 行定义.
|
inherited |
|
virtualinherited |
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 |
在文件 SGObject.cpp 第 314 行定义.
|
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 occurres. |
重载 CSGObject .
在文件 Kernel.cpp 第 943 行定义.
|
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 occurres. |
重载 CSGObject .
在文件 Kernel.cpp 第 935 行定义.
|
inherited |
|
inherited |
bool set_degree | ( | int32_t | deg | ) |
|
inherited |
在文件 SGObject.cpp 第 41 行定义.
|
inherited |
在文件 SGObject.cpp 第 46 行定义.
|
inherited |
在文件 SGObject.cpp 第 51 行定义.
|
inherited |
在文件 SGObject.cpp 第 56 行定义.
|
inherited |
在文件 SGObject.cpp 第 61 行定义.
|
inherited |
在文件 SGObject.cpp 第 66 行定义.
|
inherited |
在文件 SGObject.cpp 第 71 行定义.
|
inherited |
在文件 SGObject.cpp 第 76 行定义.
|
inherited |
在文件 SGObject.cpp 第 81 行定义.
|
inherited |
在文件 SGObject.cpp 第 86 行定义.
|
inherited |
在文件 SGObject.cpp 第 91 行定义.
|
inherited |
在文件 SGObject.cpp 第 96 行定义.
|
inherited |
在文件 SGObject.cpp 第 101 行定义.
|
inherited |
在文件 SGObject.cpp 第 106 行定义.
|
inherited |
在文件 SGObject.cpp 第 111 行定义.
|
inherited |
set generic type to T
|
inherited |
|
inherited |
|
inherited |
|
protectedinherited |
bool set_max_mismatch | ( | int32_t | max | ) |
set maximum mismatch
max | new maximum mismatch |
在文件 WeightedDegreeStringKernel.cpp 第 966 行定义.
bool set_mkl_stepsize | ( | int32_t | step | ) |
set MKL steps ize
step | new step size |
在文件 WeightedDegreeStringKernel.h 第 576 行定义.
|
virtual |
set the current kernel normalizer
重载 CKernel .
在文件 WeightedDegreeStringKernel.h 第 346 行定义.
|
virtualinherited |
bool set_position_weights | ( | float64_t * | pws, |
int32_t | len | ||
) |
set position weights
pws | new position weights |
len | number of position weights |
在文件 WeightedDegreeStringKernel.cpp 第 654 行定义.
|
protectedinherited |
bool set_use_block_computation | ( | bool | block | ) |
set if block computation shall be performed
block | if block computation shall be performed |
在文件 WeightedDegreeStringKernel.h 第 559 行定义.
bool set_wd_weights_by_type | ( | EWDKernType | type | ) |
set wd weights
type | weighted degree kernel type |
if we know a better weighting later on do a switch
在文件 WeightedDegreeStringKernel.cpp 第 571 行定义.
bool set_which_degree | ( | int32_t | which | ) |
set which degree
which | which degree |
在文件 WeightedDegreeStringKernel.h 第 595 行定义.
|
virtualinherited |
A shallow copy. All the SGObject instance variables will be simply assigned and SG_REF-ed.
被 CGaussianKernel 重载.
在文件 SGObject.cpp 第 192 行定义.
|
virtualinherited |
Computes sum of kernel values from a specified block. This method is useful while computing statistical estimation of mean/variance over kernel values but the kernel matrix is too huge to be fit inside memory.
block_begin_row | the row index at which the block starts |
block_begin_col | the col index at which the block starts |
block_size_row | the number of rows in the block |
block_size_col | the number of cols in the block |
For example, block_begin_row 0, block_begin_col 4 and block_size_row 5, block_size_col 6 represents the block that starts at index (0,4) in the kernel matrix and goes upto (0+5-1,4+6-1) i.e. (4,9) both inclusive
no_diag | if true (default is false), the diagonal elements are excluded from the sum, provided that block_size_row and block_size_col are same (i.e. the block is square). Otherwise, these are always added |
\[ \sum_{i}\sum_{j}k(i+\text{block-begin-row}, j+\text{block-begin-col}) \]
where \(i\in[0,\text{block-size-row}-1]\) and \(j\in[0,\text{block-size-col}-1]\)在文件 Kernel.cpp 第 1079 行定义.
|
virtualinherited |
Computes sum from a symmetric part of the kernel matrix that always is supposed to contain the main upper diagonal. This method is useful while computing statistical estimation of mean/variance over kernel values but the kernel matrix is too huge to be fit inside memory.
block_begin | the row and col index at which the block starts |
block_size | the number of rows and cols in the block |
For example, block_begin 4 and block_size 5 represents the block that starts at index (4,4) in the kernel matrix and goes upto (4+5-1,4+5-1) i.e. (8,8) both inclusive
no_diag | if true (default), the diagonal elements are excluded from the sum |
\[ \sum_{i}\sum_{j}k(i+\text{block-begin}, j+\text{block-begin}) \]
where \(i,j\in[0,\text{block-size}-1]\)在文件 Kernel.cpp 第 1026 行定义.
|
inherited |
unset generic type
this has to be called in classes specializing a template class
在文件 SGObject.cpp 第 303 行定义.
|
protectedinherited |
|
virtualinherited |
Updates the hash of current parameter combination
在文件 SGObject.cpp 第 248 行定义.
|
protected |
alphabet of features
在文件 WeightedDegreeStringKernel.h 第 761 行定义.
|
protected |
if block computation is used
在文件 WeightedDegreeStringKernel.h 第 745 行定义.
|
protected |
(internal) block weights
在文件 WeightedDegreeStringKernel.h 第 748 行定义.
|
protected |
degree
在文件 WeightedDegreeStringKernel.h 第 732 行定义.
|
protected |
if kernel is initialized
在文件 WeightedDegreeStringKernel.h 第 742 行定义.
|
inherited |
io
在文件 SGObject.h 第 369 行定义.
|
protectedinherited |
|
protected |
length
在文件 WeightedDegreeStringKernel.h 第 734 行定义.
|
protectedinherited |
|
inherited |
parameters wrt which we can compute gradients
在文件 SGObject.h 第 384 行定义.
|
inherited |
Hash of parameter values
在文件 SGObject.h 第 387 行定义.
|
inherited |
model selection parameters
在文件 SGObject.h 第 381 行定义.
|
inherited |
parameters
在文件 SGObject.h 第 378 行定义.
|
protected |
maximum mismatch
在文件 WeightedDegreeStringKernel.h 第 737 行定义.
|
protected |
MKL step size
在文件 WeightedDegreeStringKernel.h 第 730 行定义.
|
protectedinherited |
|
protectedinherited |
|
protectedinherited |
|
protectedinherited |
|
protectedinherited |
|
inherited |
parallel
在文件 SGObject.h 第 372 行定义.
|
protected |
position weights
在文件 WeightedDegreeStringKernel.h 第 724 行定义.
|
protected |
position weights
在文件 WeightedDegreeStringKernel.h 第 726 行定义.
|
protectedinherited |
|
protected |
sequence length
在文件 WeightedDegreeStringKernel.h 第 739 行定义.
|
protected |
if tree is initialized
在文件 WeightedDegreeStringKernel.h 第 758 行定义.
|
protected |
tries
在文件 WeightedDegreeStringKernel.h 第 755 行定义.
|
protected |
WeightedDegree kernel type
在文件 WeightedDegreeStringKernel.h 第 750 行定义.
|
inherited |
version
在文件 SGObject.h 第 375 行定义.
|
protected |
degree*length weights length must match seq_length if != 0
在文件 WeightedDegreeStringKernel.h 第 716 行定义.
|
protected |
weights buffer
在文件 WeightedDegreeStringKernel.h 第 728 行定义.
|
protected |
degree
在文件 WeightedDegreeStringKernel.h 第 718 行定义.
|
protected |
length
在文件 WeightedDegreeStringKernel.h 第 720 行定义.
|
protected |
which degree
在文件 WeightedDegreeStringKernel.h 第 752 行定义.