| add_preprocessor(CPreprocessor *p) | CFeatures | virtual |
| add_subset(SGVector< index_t > subset) | CFeatures | virtual |
| alphabet | CStringFeatures< ST > | protected |
| append_features(CStringFeatures< ST > *sf) | CStringFeatures< ST > | |
| append_features(SGString< ST > *p_features, int32_t p_num_vectors, int32_t p_max_string_length) | CStringFeatures< ST > | |
| apply_preprocessor(bool force_preprocessing=false) | CStringFeatures< ST > | virtual |
| build_parameter_dictionary(CMap< TParameter *, CSGObject * > &dict) | CSGObject | |
| CFeatures(int32_t size=0) | CFeatures | |
| CFeatures(const CFeatures &orig) | CFeatures | |
| CFeatures(CFile *loader) | CFeatures | |
| check_feature_compatibility(CFeatures *f) const | CFeatures | |
| clean_preprocessors() | CFeatures | |
| cleanup() | CStringFileFeatures< ST > | protectedvirtual |
| cleanup_feature_vector(int32_t num) | CStringFileFeatures< ST > | protectedvirtual |
| cleanup_feature_vectors(int32_t start, int32_t stop) | CStringFeatures< ST > | virtual |
| compute_feature_vector(int32_t num, int32_t &len) | CStringFeatures< ST > | protectedvirtual |
| compute_symbol_mask_table(int64_t max_val) | CStringFeatures< ST > | |
| compute_symbol_mask_table(int64_t max_val) | CStringFeatures< ST > | |
| compute_symbol_mask_table(int64_t max_val) | CStringFeatures< ST > | |
| compute_symbol_mask_table(int64_t max_val) | CStringFeatures< ST > | |
| copy_features(int32_t &num_str, int32_t &max_str_len) | CStringFeatures< ST > | virtual |
| copy_subset(SGVector< index_t > indices) | CStringFeatures< ST > | virtual |
| create_merged_copy(CFeatures *other) | CFeatures | virtual |
| create_random(float64_t *hist, int32_t rows, int32_t cols, int32_t num_vec) | CStringFeatures< ST > | virtual |
| CSGObject() | CSGObject | |
| CSGObject(const CSGObject &orig) | CSGObject | |
| CStringFeatures() | CStringFeatures< ST > | |
| CStringFeatures(EAlphabet alpha) | CStringFeatures< ST > | |
| CStringFeatures(SGStringList< ST > string_list, EAlphabet alpha) | CStringFeatures< ST > | |
| CStringFeatures(SGStringList< ST > string_list, CAlphabet *alpha) | CStringFeatures< ST > | |
| CStringFeatures(CAlphabet *alpha) | CStringFeatures< ST > | |
| CStringFeatures(const CStringFeatures &orig) | CStringFeatures< ST > | |
| CStringFeatures(CFile *loader, EAlphabet alpha=DNA) | CStringFeatures< ST > | |
| CStringFileFeatures() | CStringFileFeatures< ST > | |
| CStringFileFeatures(const char *fname, EAlphabet alpha) | CStringFileFeatures< ST > | |
| deep_copy() const | CSGObject | virtual |
| del_preprocessor(int32_t num) | CFeatures | virtual |
| determine_maximum_string_length() | CStringFeatures< ST > | |
| disable_on_the_fly_preprocessing() | CStringFeatures< ST > | |
| duplicate() const | CStringFeatures< ST > | virtual |
| embed_features(int32_t p_order) | CStringFeatures< ST > | |
| embed_features(int32_t p_order) | CStringFeatures< ST > | |
| embed_features(int32_t p_order) | CStringFeatures< ST > | |
| embed_features(int32_t p_order) | CStringFeatures< ST > | |
| embed_word(ST *seq, int32_t len) | CStringFeatures< ST > | |
| embed_word(float32_t *seq, int32_t len) | CStringFeatures< ST > | |
| embed_word(float64_t *seq, int32_t len) | CStringFeatures< ST > | |
| embed_word(floatmax_t *seq, int32_t len) | CStringFeatures< ST > | |
| enable_on_the_fly_preprocessing() | CStringFeatures< ST > | |
| feature_cache | CStringFeatures< ST > | protected |
| features | CStringFeatures< ST > | protected |
| fetch_meta_info_from_file(int32_t granularity=1048576) | CStringFileFeatures< ST > | protected |
| file | CStringFileFeatures< ST > | protected |
| free_feature_vector(ST *feat_vec, int32_t num, bool dofree) | CStringFeatures< ST > | |
| free_feature_vector(SGVector< ST > feat_vec, int32_t num) | CStringFeatures< ST > | |
| get_alphabet() | CStringFeatures< ST > | |
| get_cache_size() const | CFeatures | |
| get_feature(int32_t vec_num, int32_t feat_num) | CStringFeatures< ST > | virtual |
| get_feature_class() const | CStringFeatures< ST > | virtual |
| get_feature_type() const | CStringFeatures< ST > | virtual |
| get_feature_type() const | CStringFeatures< ST > | virtual |
| get_feature_type() const | CStringFeatures< ST > | virtual |
| get_feature_type() const | CStringFeatures< ST > | virtual |
| get_feature_type() const | CStringFeatures< ST > | virtual |
| get_feature_type() const | CStringFeatures< ST > | virtual |
| get_feature_type() const | CStringFeatures< ST > | virtual |
| get_feature_type() const | CStringFeatures< ST > | virtual |
| get_feature_type() const | CStringFeatures< ST > | virtual |
| get_feature_type() const | CStringFeatures< ST > | virtual |
| get_feature_type() const | CStringFeatures< ST > | virtual |
| get_feature_type() const | CStringFeatures< ST > | virtual |
| get_feature_type() const | CStringFeatures< ST > | virtual |
| get_feature_vector(int32_t num) | CStringFeatures< ST > | |
| get_feature_vector(int32_t num, int32_t &len, bool &dofree) | CStringFeatures< ST > | |
| get_features() | CStringFeatures< ST > | |
| get_features(int32_t &num_str, int32_t &max_str_len) | CStringFeatures< ST > | virtual |
| get_features(SGString< ST > **dst, int32_t *num_str) | CStringFeatures< ST > | virtual |
| get_global_io() | CSGObject | |
| get_global_parallel() | CSGObject | |
| get_global_version() | CSGObject | |
| get_histogram(float64_t **hist, int32_t *rows, int32_t *cols, bool normalize=true) | CStringFeatures< ST > | virtual |
| get_line(uint64_t &len, uint64_t &offs, int32_t &line_nr, uint64_t file_length) | CStringFileFeatures< ST > | protected |
| get_masked_symbols(ST symbol, uint8_t mask) | CStringFeatures< ST > | |
| get_masked_symbols(bool symbol, uint8_t mask) | CStringFeatures< ST > | |
| get_masked_symbols(float32_t symbol, uint8_t mask) | CStringFeatures< ST > | |
| get_masked_symbols(float64_t symbol, uint8_t mask) | CStringFeatures< ST > | |
| get_masked_symbols(floatmax_t symbol, uint8_t mask) | CStringFeatures< ST > | |
| get_max_num_symbols() | CStringFeatures< ST > | |
| get_max_vector_length() | CStringFeatures< ST > | virtual |
| get_modelsel_names() | CSGObject | |
| get_modsel_param_descr(const char *param_name) | CSGObject | |
| get_modsel_param_index(const char *param_name) | CSGObject | |
| get_name() const | CStringFeatures< ST > | virtual |
| get_num_preprocessed() const | CFeatures | |
| get_num_preprocessors() const | CFeatures | |
| get_num_symbols() | CStringFeatures< ST > | |
| get_num_vectors() const | CStringFeatures< ST > | virtual |
| get_order() | CStringFeatures< ST > | |
| get_original_num_symbols() | CStringFeatures< ST > | |
| get_preprocessor(int32_t num) const | CFeatures | |
| get_size() const | CStringFeatures< ST > | virtual |
| get_subset_stack() | CFeatures | virtual |
| get_transposed() | CStringFeatures< ST > | |
| get_transposed(int32_t &num_feat, int32_t &num_vec) | CStringFeatures< ST > | |
| get_vector_length(int32_t vec_num) | CStringFeatures< ST > | virtual |
| get_zero_terminated_string_copy(SGString< ST > str) | CStringFeatures< ST > | static |
| has_property(EFeatureProperty p) const | CFeatures | |
| have_same_length(int32_t len=-1) | CStringFeatures< ST > | |
| io | CSGObject | |
| is_generic(EPrimitiveType *generic) const | CSGObject | virtual |
| is_preprocessed(int32_t num) const | CFeatures | |
| length_of_single_string | CStringFeatures< ST > | protected |
| list_feature_obj() const | CFeatures | |
| load(CFile *loader) | CStringFeatures< ST > | virtual |
| load_all_file_parameters(int32_t file_version, int32_t current_version, CSerializableFile *file, const char *prefix="") | CSGObject | |
| load_ascii_file(char *fname, bool remap_to_bin=true, EAlphabet ascii_alphabet=DNA, EAlphabet binary_alphabet=RAWDNA) | CStringFeatures< ST > | |
| load_compressed(char *src, bool decompress) | CStringFeatures< ST > | virtual |
| load_fasta_file(const char *fname, bool ignore_invalid=false) | CStringFeatures< ST > | |
| load_fastq_file(const char *fname, bool ignore_invalid=false, bool bitremap_in_single_string=false) | CStringFeatures< ST > | |
| load_file_parameters(const SGParamInfo *param_info, int32_t file_version, CSerializableFile *file, const char *prefix="") | CSGObject | |
| load_from_directory(char *dirname) | CStringFeatures< ST > | |
| load_serializable(CSerializableFile *file, const char *prefix="", int32_t param_version=VERSION_PARAMETER) | CSGObject | virtual |
| load_serializable_post() | CSGObject | protectedvirtual |
| load_serializable_pre() | CSGObject | protectedvirtual |
| m_hash | CSGObject | |
| m_model_selection_parameters | CSGObject | |
| m_parameter_map | CSGObject | |
| m_parameters | CSGObject | |
| m_subset_stack | CFeatures | protected |
| map_parameters(DynArray< TParameter * > *param_base, int32_t &base_version, DynArray< const SGParamInfo * > *target_param_infos) | CSGObject | |
| max_string_length | CStringFeatures< ST > | protected |
| migrate(DynArray< TParameter * > *param_base, const SGParamInfo *target) | CSGObject | protectedvirtual |
| num_symbols | CStringFeatures< ST > | protected |
| num_vectors | CStringFeatures< ST > | protected |
| obtain_by_position_list(int32_t window_size, CDynamicArray< int32_t > *positions, int32_t skip=0) | CStringFeatures< ST > | |
| obtain_by_sliding_window(int32_t window_size, int32_t step_size, int32_t skip=0) | CStringFeatures< ST > | |
| obtain_from_char(CStringFeatures< char > *sf, int32_t start, int32_t p_order, int32_t gap, bool rev) | CStringFeatures< ST > | |
| obtain_from_char_features(CStringFeatures< CT > *sf, int32_t start, int32_t p_order, int32_t gap, bool rev) | CStringFeatures< ST > | |
| obtain_from_char_features(CStringFeatures< CT > *sf, int32_t start, int32_t p_order, int32_t gap, bool rev) | CStringFeatures< ST > | |
| obtain_from_char_features(CStringFeatures< CT > *sf, int32_t start, int32_t p_order, int32_t gap, bool rev) | CStringFeatures< ST > | |
| obtain_from_char_features(CStringFeatures< CT > *sf, int32_t start, int32_t p_order, int32_t gap, bool rev) | CStringFeatures< ST > | |
| one_to_one_migration_prepare(DynArray< TParameter * > *param_base, const SGParamInfo *target, TParameter *&replacement, TParameter *&to_migrate, char *old_name=NULL) | CSGObject | protectedvirtual |
| order | CStringFeatures< ST > | protected |
| original_num_symbols | CStringFeatures< ST > | protected |
| parallel | CSGObject | |
| preprocess_on_get | CStringFeatures< ST > | protected |
| print_modsel_params() | CSGObject | |
| print_serializable(const char *prefix="") | CSGObject | virtual |
| remove_all_subsets() | CFeatures | virtual |
| remove_subset() | CFeatures | virtual |
| reshape(int32_t num_features, int32_t num_vectors) | CFeatures | virtual |
| save(CFile *writer) | CStringFeatures< ST > | virtual |
| save_compressed(char *dest, E_COMPRESSION_TYPE compression, int level) | CStringFeatures< ST > | virtual |
| save_serializable(CSerializableFile *file, const char *prefix="", int32_t param_version=VERSION_PARAMETER) | CSGObject | virtual |
| save_serializable_post() | CSGObject | protectedvirtual |
| save_serializable_pre() | CSGObject | protectedvirtual |
| set_feature_vector(SGVector< ST > vector, int32_t num) | CStringFeatures< ST > | |
| set_feature_vector(int32_t num, ST *string, int32_t len) | CStringFeatures< ST > | virtual |
| set_features(SGStringList< ST > feats) | CStringFeatures< ST > | |
| set_features(SGString< ST > *p_features, int32_t p_num_vectors, int32_t p_max_string_length) | CStringFeatures< ST > | |
| set_generic() | CSGObject | |
| set_global_io(SGIO *io) | CSGObject | |
| set_global_parallel(Parallel *parallel) | CSGObject | |
| set_global_version(Version *version) | CSGObject | |
| set_preprocessed(int32_t num) | CFeatures | |
| set_property(EFeatureProperty p) | CFeatures | |
| shallow_copy() const | CSGObject | virtual |
| shift_offset(ST offset, int32_t amount) | CStringFeatures< ST > | |
| shift_offset(bool symbol, int32_t amount) | CStringFeatures< ST > | |
| shift_offset(float32_t symbol, int32_t amount) | CStringFeatures< ST > | |
| shift_offset(float64_t symbol, int32_t amount) | CStringFeatures< ST > | |
| shift_offset(floatmax_t symbol, int32_t amount) | CStringFeatures< ST > | |
| shift_symbol(ST symbol, int32_t amount) | CStringFeatures< ST > | |
| shift_symbol(bool symbol, int32_t amount) | CStringFeatures< ST > | |
| shift_symbol(float32_t symbol, int32_t amount) | CStringFeatures< ST > | |
| shift_symbol(float64_t symbol, int32_t amount) | CStringFeatures< ST > | |
| shift_symbol(floatmax_t symbol, int32_t amount) | CStringFeatures< ST > | |
| single_string | CStringFeatures< ST > | protected |
| subset_changed_post() | CStringFeatures< ST > | virtual |
| symbol_mask_table | CStringFeatures< ST > | protected |
| unembed_word(ST word, uint8_t *seq, int32_t len) | CStringFeatures< ST > | |
| unembed_word(float32_t word, uint8_t *seq, int32_t len) | CStringFeatures< ST > | |
| unembed_word(float64_t word, uint8_t *seq, int32_t len) | CStringFeatures< ST > | |
| unembed_word(floatmax_t word, uint8_t *seq, int32_t len) | CStringFeatures< ST > | |
| unset_generic() | CSGObject | |
| unset_property(EFeatureProperty p) | CFeatures | |
| update_parameter_hash() | CSGObject | protectedvirtual |
| version | CSGObject | |
| ~CFeatures() | CFeatures | virtual |
| ~CSGObject() | CSGObject | virtual |
| ~CStringFeatures() | CStringFeatures< ST > | virtual |
| ~CStringFileFeatures() | CStringFileFeatures< ST > | virtual |
