LocARNA-1.9.2
LocARNA::TraceController Member List
This is the complete list of members for LocARNA::TraceController, including all inherited members.
consensus_cost(size_type i, size_type j, const std::vector< TraceRange > &trs) const LocARNA::TraceRange
get_delta() const LocARNA::TraceController [inline]
is_valid(size_type i, size_type j) const LocARNA::TraceController [inline]
is_valid_match(size_type i, size_type j) const LocARNA::TraceController [inline, virtual]
max_col(size_t i) const LocARNA::TraceRange [inline]
max_col_LocARNA::TraceRange [protected]
min_col(size_t i) const LocARNA::TraceRange [inline]
min_col_LocARNA::TraceRange [protected]
print_debug(std::ostream &out) const LocARNA::TraceRange
remove_common_gaps(const SeqEntry &aliA, const SeqEntry &aliB)LocARNA::TraceRange [static]
restrict_by_anchors(const AnchorConstraints &constraints)LocARNA::TraceController
rows() const LocARNA::TraceRange [inline]
SeqEntry typedefLocARNA::TraceRange
seqentry_pair_t typedefLocARNA::TraceRange
TraceController(const Sequence &seqA, const Sequence &seqB, const MultipleAlignment *ma, int delta, bool relaxed_merging=false)LocARNA::TraceController
TraceRange()LocARNA::TraceRange [inline, protected]
TraceRange(const SeqEntry &pseqA, const SeqEntry &pseqB, const SeqEntry &aliA, const SeqEntry &aliB, size_type delta)LocARNA::TraceRange
TraceRange(size_type lenA, size_type lenB, const std::vector< TraceRange > &trs, size_type delta)LocARNA::TraceRange
~MatchController() (defined in LocARNA::MatchController)LocARNA::MatchController [virtual]
~TraceController()LocARNA::TraceController [virtual]
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