COligoStringKernel Member List

This is the complete list of members for COligoStringKernel, including all inherited members.
add_to_normal(int32_t vector_idx, float64_t weight)CKernel [virtual]
cache_sizeCKernel [protected]
CKernel()CKernel
CKernel(int32_t size)CKernel
CKernel(CFeatures *l, CFeatures *r, int32_t size)CKernel
cleanup()COligoStringKernel [virtual]
clear_normal()CKernel [virtual]
COligoStringKernel(int32_t cache_size, int32_t k, float64_t width)COligoStringKernel
combined_kernel_weightCKernel [protected]
compute(int32_t x, int32_t y)COligoStringKernel [virtual]
compute_batch(int32_t num_vec, int32_t *vec_idx, float64_t *target, int32_t num_suppvec, int32_t *IDX, float64_t *alphas, float64_t factor=1.0)CKernel [virtual]
compute_by_subkernel(int32_t vector_idx, float64_t *subkernel_contrib)CKernel [virtual]
compute_optimized(int32_t vector_idx)CKernel [virtual]
compute_row_start(int64_t offs, int32_t n, bool symmetric)CKernel [protected]
CSGObject()CSGObject
CSGObject(const CSGObject &orig)CSGObject
CStringKernel(int32_t cachesize)CStringKernel< char >
CStringKernel(CFeatures *l, CFeatures *r)CStringKernel< char >
delete_optimization()CKernel [virtual]
encodeOligo(const std::string &sequence, uint32_t k_mer_length, const std::string &allowed_characters, std::vector< std::pair< int32_t, float64_t > > &values)COligoStringKernel [protected, static]
gauss_tableCOligoStringKernel [protected]
get_cache_size()CKernel
get_combined_kernel_weight()CKernel
get_feature_class()CStringKernel< char > [virtual]
get_feature_type()CStringKernel< char > [virtual]
get_io()CSGObject
get_is_initialized()CKernel
get_kernel_matrix(float64_t **dst, int32_t *m, int32_t *n)CKernel
get_kernel_matrix(int32_t &m, int32_t &n, T *target)CKernel
get_kernel_matrix_helper(void *p)CKernel [protected, static]
get_kernel_type()COligoStringKernel [virtual]
get_lhs()CKernel
get_name() const COligoStringKernel [virtual]
get_normalizer()CKernel [virtual]
get_num_subkernels()CKernel [virtual]
get_num_vec_lhs()CKernel [virtual]
get_num_vec_rhs()CKernel [virtual]
get_optimization_type()CKernel
get_parallel()CSGObject
get_rhs()CKernel
get_subkernel_weights(int32_t &num_weights)CKernel [virtual]
get_version()CSGObject
getSequences(const std::vector< std::string > &sequences, uint32_t k_mer_length, const std::string &allowed_characters, std::vector< std::vector< std::pair< int32_t, float64_t > > > &encoded_sequences)COligoStringKernel [protected, static]
has_features()CKernel [virtual]
has_property(EKernelProperty p)CKernel
init(CFeatures *l, CFeatures *r)COligoStringKernel [virtual]
init_normalizer()CKernel [virtual]
init_optimization(int32_t count, int32_t *IDX, float64_t *weights)CKernel [virtual]
init_optimization_svm(CSVM *svm)CKernel
ioCSGObject
kCOligoStringKernel [protected]
kernel(int32_t idx_a, int32_t idx_b)CKernel
kernel_matrixCKernel [protected]
kernelOligoFast(const std::vector< std::pair< int32_t, float64_t > > &x, const std::vector< std::pair< int32_t, float64_t > > &y, int32_t max_distance=-1)COligoStringKernel [protected]
lhsCKernel [protected]
lhs_equals_rhs()CKernel
list_kernel()CKernel
load(CFile *loader)CKernel
normalizerCKernel [protected]
num_lhsCKernel [protected]
num_rhsCKernel [protected]
opt_typeCKernel [protected]
optimization_initializedCKernel [protected]
parallelCSGObject
propertiesCKernel [protected]
remove_lhs()CKernel [virtual]
remove_lhs_and_rhs()CKernel [virtual]
remove_rhs()CKernel [virtual]
rhsCKernel [protected]
save(CFile *writer)CKernel
set_cache_size(int32_t size)CKernel
set_combined_kernel_weight(float64_t nw)CKernel
set_io(CIO *io)CSGObject
set_is_initialized(bool p_init)CKernel [protected]
set_normalizer(CKernelNormalizer *normalizer)CKernel [virtual]
set_optimization_type(EOptimizationType t)CKernel [virtual]
set_parallel(CParallel *parallel)CSGObject
set_property(EKernelProperty p)CKernel [protected]
set_subkernel_weights(float64_t *weights, int32_t num_weights)CKernel [virtual]
set_version(CVersion *version)CSGObject
unset_property(EKernelProperty p)CKernel [protected]
versionCSGObject
widthCOligoStringKernel [protected]
~CKernel()CKernel [virtual]
~COligoStringKernel()COligoStringKernel [virtual]
~CSGObject()CSGObject [virtual]
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