hmm_score.hh File Reference

#include <ost/seq/profile_handle.hh>
#include <ost/seq/alignment_handle.hh>

Go to the source code of this file.

Namespaces
	ost
	ost::seq
	ost::seq::alg

Functions
Real	HMMScore (const ost::seq::ProfileHandle &profile_0, const ost::seq::ProfileHandle &profile_1, const ost::seq::AlignmentHandle &aln, int seq_0_idx, int seq_1_idx, Real match_score_offset=-0.03, Real correl_score_weight=0.1, Real del_start_penalty_factor=0.6, Real del_extend_penalty_factor=0.6, Real ins_start_penalty_factor=0.6, Real ins_extend_penalty_factor=0.6)