, including all inherited members.
add_byte_to_histogram(uint8_t p) | CAlphabet | |
add_string_to_histogram(T *p, int64_t len) | CAlphabet | |
alphabet | CAlphabet | [protected] |
alphabet_names | CAlphabet | [static] |
B_0 | CAlphabet | [static] |
B_A | CAlphabet | [static] |
B_C | CAlphabet | [static] |
B_G | CAlphabet | [static] |
B_T | CAlphabet | [static] |
CAlphabet() | CAlphabet | |
CAlphabet(char *alpha, int32_t len) | CAlphabet | |
CAlphabet(EAlphabet alpha) | CAlphabet | |
CAlphabet(CAlphabet *alpha) | CAlphabet | |
check_alphabet(bool print_error=true) | CAlphabet | |
check_alphabet_size(bool print_error=true) | CAlphabet | |
clear_histogram() | CAlphabet | |
copy_histogram(CAlphabet *src) | CAlphabet | [protected] |
CSGObject() | CSGObject | |
CSGObject(const CSGObject &orig) | CSGObject | |
get_alphabet() const | CAlphabet | |
get_alphabet_name(EAlphabet alphabet) | CAlphabet | [static] |
get_global_io() | CSGObject | |
get_global_parallel() | CSGObject | |
get_global_version() | CSGObject | |
get_hist(int64_t **h, int32_t *len) | CAlphabet | |
get_histogram() | CAlphabet | |
get_max_value_in_histogram() | CAlphabet | |
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 | CAlphabet | [virtual] |
get_num_bits() const | CAlphabet | |
get_num_bits_in_histogram() | CAlphabet | |
get_num_symbols() const | CAlphabet | |
get_num_symbols_in_histogram() | CAlphabet | |
histogram | CAlphabet | [protected] |
init_map_table() | CAlphabet | [protected] |
io | CSGObject | |
is_generic(EPrimitiveType *generic) const | CSGObject | [virtual] |
is_valid(uint8_t c) | CAlphabet | |
load_serializable(CSerializableFile *file, const char *prefix="") | CSGObject | [virtual] |
load_serializable_post(void) | CAlphabet | [protected, virtual] |
load_serializable_pre() | CSGObject | [protected, virtual] |
m_model_selection_parameters | CSGObject | |
m_parameters | CSGObject | |
maptable_to_bin | CAlphabet | [protected] |
maptable_to_char | CAlphabet | [protected] |
MAPTABLE_UNDEF | CAlphabet | [static] |
num_bits | CAlphabet | [protected] |
num_symbols | CAlphabet | [protected] |
parallel | CSGObject | |
print_histogram() | CAlphabet | |
print_serializable(const char *prefix="") | CSGObject | [virtual] |
remap_to_bin(uint8_t c) | CAlphabet | |
remap_to_char(uint8_t c) | CAlphabet | |
save_serializable(CSerializableFile *file, const char *prefix="") | CSGObject | [virtual] |
save_serializable_post() | CSGObject | [protected, virtual] |
save_serializable_pre() | CSGObject | [protected, virtual] |
set_alphabet(EAlphabet alpha) | CAlphabet | |
set_generic() | CSGObject | |
set_global_io(SGIO *io) | CSGObject | |
set_global_parallel(Parallel *parallel) | CSGObject | |
set_global_version(Version *version) | CSGObject | |
translate_from_single_order(ST *obs, int32_t sequence_length, int32_t start, int32_t p_order, int32_t max_val) | CAlphabet | [static] |
translate_from_single_order(ST *obs, int32_t sequence_length, int32_t start, int32_t p_order, int32_t max_val, int32_t gap) | CAlphabet | [static] |
translate_from_single_order_reversed(ST *obs, int32_t sequence_length, int32_t start, int32_t p_order, int32_t max_val) | CAlphabet | [static] |
translate_from_single_order_reversed(ST *obs, int32_t sequence_length, int32_t start, int32_t p_order, int32_t max_val, int32_t gap) | CAlphabet | [static] |
unset_generic() | CSGObject | |
valid_chars | CAlphabet | [protected] |
version | CSGObject | |
~CAlphabet() | CAlphabet | [virtual] |
~CSGObject() | CSGObject | [virtual] |