LocARNA::Aligner Member List

This is the complete list of members for LocARNA::Aligner, including all inherited members.

align()	LocARNA::Aligner
Aligner(const Aligner &aligner)	LocARNA::Aligner
Aligner(const AlignerParams &ap)	LocARNA::Aligner
create()	LocARNA::Aligner	[inline, static]
evaluate()	LocARNA::Aligner
get_alignment() const	LocARNA::Aligner
get_restriction() const	LocARNA::Aligner
normalized_align(score_t L, bool verbose)	LocARNA::Aligner
operator=(const Aligner &aligner)	LocARNA::Aligner
optimize_consensus_structure()	LocARNA::Aligner
penalized_align(score_t position_penalty)	LocARNA::Aligner
set_alignment(const Alignment &alignment)	LocARNA::Aligner
set_restriction(const AlignerRestriction &r)	LocARNA::Aligner
suboptimal(int k, score_t threshold, bool normalized, score_t normalized_L, size_t output_width, bool verbose, bool opt_local_out, bool opt_pos_output, bool opt_write_structure)	LocARNA::Aligner
trace()	LocARNA::Aligner
~Aligner()	LocARNA::Aligner