ALI_PROFILE Member List

This is the complete list of members for ALI_PROFILE, including all inherited members.

ALI_PROFILE(ALI_SEQUENCE *sequence, ALI_PROFILE_CONTEXT *context)	ALI_PROFILE
base_weight(unsigned long pos, unsigned char c)	ALI_PROFILE	inline
borders_sequence()	ALI_PROFILE	inline
cheapest_sequence()	ALI_PROFILE
complement_position(unsigned long pos)	ALI_PROFILE	inline
gap_percent(unsigned long begin, unsigned long end)	ALI_PROFILE	inline
is_in_helix(unsigned long pos, unsigned long *first, unsigned long *last)	ALI_PROFILE
is_in_helix(unsigned long pos)	ALI_PROFILE	inline
is_internal_last(unsigned long pos)	ALI_PROFILE	inline
is_outside_helix(unsigned long pos, unsigned long *first, unsigned long *last)	ALI_PROFILE
length()	ALI_PROFILE	inline
Noncopyable()	Noncopyable	inlineprivate
print(int start=-1, int end=-1)	ALI_PROFILE	inline
sequence()	ALI_PROFILE	inline
sequence_length()	ALI_PROFILE	inline
w_bind(unsigned long pos_1, unsigned char base_1, unsigned long pos_2, unsigned char base_2)	ALI_PROFILE	inline
w_binding(unsigned long first_position_of_sequence, ALI_SEQUENCE *sequence)	ALI_PROFILE
w_del(unsigned long begin, unsigned long end)	ALI_PROFILE	inline
w_del_cheap(unsigned long position)	ALI_PROFILE	inline
w_del_multi(unsigned long start, unsigned long end)	ALI_PROFILE	inline
w_del_multi_cheap(unsigned long start, unsigned long end)	ALI_PROFILE	inline
w_del_multi_unweighted(unsigned long start, unsigned long end)	ALI_PROFILE	inline
w_ins(unsigned long, unsigned long)	ALI_PROFILE	inline
w_ins_cheap(unsigned long, unsigned long)	ALI_PROFILE	inline
w_ins_multi(unsigned long startx, unsigned long endx)	ALI_PROFILE	inline
w_ins_multi_cheap(unsigned long startx, unsigned long endx)	ALI_PROFILE	inline
w_ins_multi_unweighted(unsigned long startx, unsigned long endx)	ALI_PROFILE	inline
w_sub(unsigned long positiony, unsigned long positionx)	ALI_PROFILE	inline
w_sub_gap(unsigned long positiony)	ALI_PROFILE	inline
w_sub_gap_cheap(unsigned long positiony)	ALI_PROFILE	inline
w_sub_maximum()	ALI_PROFILE	inline
w_sub_multi_gap_cheap(unsigned long start, unsigned long end)	ALI_PROFILE	inline
~ALI_PROFILE()	ALI_PROFILE