This is the complete list of members for vg::LoggedGapAlignmentScorer, including all inherited members.

alignment_score_partition_function(double lambda, const double matrix[16], const double nt_freqs[4])	vg::AlignmentScorer	privatestatic
compute_divergence(size_t matches, size_t mismatches, const std::vector< size_t > &gap_lengths)	vg::LoggedGapAlignmentScorer	privatestatic
count_alignment_operations(const Alignment &aln, size_t &matches, size_t &mismatches, std::vector< size_t > &gap_lengths)	vg::LoggedGapAlignmentScorer	privatestatic
count_alignment_operations(const Alignment &aln)	vg::LoggedGapAlignmentScorer	privatestatic
divergence	vg::LoggedGapAlignmentScorer	private
gap_lengths	vg::LoggedGapAlignmentScorer
get_log_base() const override	vg::LoggedGapAlignmentScorer	virtual
log_base	vg::LoggedGapAlignmentScorer	private
LoggedGapAlignmentScorer(const Alignment &standard, double gc_content=default_gc_content)	vg::LoggedGapAlignmentScorer	explicit
LoggedGapAlignmentScorer(const Alignment &standard, std::tuple< size_t, size_t, std::vector< size_t >> &&operation_counts, double gc_content=default_gc_content)	vg::LoggedGapAlignmentScorer	private
match	vg::LoggedGapAlignmentScorer
matches	vg::LoggedGapAlignmentScorer
mismatch	vg::LoggedGapAlignmentScorer
mismatches	vg::LoggedGapAlignmentScorer
recover_log_base(const double matrix[16], double gc_content, double tol=1e-12)	vg::AlignmentScorer	protectedstatic
score_alignment(const Alignment &aln) const override	vg::LoggedGapAlignmentScorer	virtual
score_from_counts(size_t matches, size_t mismatches, const std::vector< size_t > &gap_lengths) const	vg::LoggedGapAlignmentScorer	private
standard_address	vg::LoggedGapAlignmentScorer	private
verify_valid_log_odds_score_matrix(const double matrix[16], const double nt_freqs[4])	vg::AlignmentScorer	privatestatic
~AlignmentScorer()=default	vg::AlignmentScorer	virtual