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NCBI C++ ToolKit: src/algo/align/util/score_builder.cpp File Reference

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◆ s_CleanSeqAlign()

Definition at line 841 of file score_builder.cpp.

References CSeq_align_Base::CanGetSegs(), CSeq_align_Base::GetSegs(), CSeq_align_Base::C_Segs::IsDenseg(), CSeq_align_Base::C_Segs::IsDisc(), CSeq_align_Base::C_Segs::IsSparse(), CSeq_align_Base::C_Segs::IsSpliced(), CSeq_align_Base::C_Segs::IsStd(), NON_CONST_ITERATE, CSeq_align_Base::SetBounds(), CSeq_align_Base::SetExt(), CSeq_align_Base::SetId(), CSeq_align_Base::SetScore(), and CSeq_align_Base::SetSegs().

Referenced by CScoreBuilder::ComputeTieBreaker().

◆ s_ComputeTraceback()

Definition at line 702 of file score_builder.cpp.

References CSeq_align::CheckNumRows(), CSeqManip::Complement(), CSeqUtil::e_Iupacna, eUnknown, CSeq_align_Base::C_Segs::GetDenseg(), CDense_seg_Base::GetNumseg(), CSeq_align_Base::GetSegs(), CAlnVec::GetSegSeqString(), CSeq_align::GetSeqStrand(), i, CSeq_align_Base::C_Segs::IsDenseg(), match(), NCBI_ASSERT, NCBI_THROW, query, s_RecordMatch(), and subject.

Referenced by CScoreBuilder::AddTracebacks(), and CScoreBuilder::GetTraceback().

◆ s_RecordMatch() ◆ USING_SCOPE() [1/2] ◆ USING_SCOPE() [2/2] ◆ reverse_4na const unsigned char reverse_4na[16] = {0, 8, 4, 0, 2, 0, 0, 0, 1} static

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