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Searched refs:TDPMatrixLocation (Results 1 – 12 of 12) sorted by relevance

/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/seeds/
H A Dbanded_chain_alignment_profile.h81 template <typename TSpec = FreeEndGaps_<>, typename TDPMatrixLocation = BandedChainInnerDPMatrix>
88 template <typename TFreeEndGaps, typename TDPMatrixLocation, typename TGapCosts, typename TTracebac…
90 struct DPMetaColumn_<DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, …
110 template <typename TFreeEndGaps, typename TDPMatrixLocation, typename TGapCosts, typename TTracebac…
132 template <typename TFreeEndGaps, typename TDPMatrixLocation, typename TGapCosts, typename TTracebac…
180 template <typename TSpec, typename TDPMatrixLocation>
181 struct IsGlobalAlignment_<BandedChainAlignment_<TSpec, TDPMatrixLocation> > : False{};
187 template <typename TFreeEndGaps, typename TDPMatrixLocation, typename TDPSide>
188 struct IsFreeEndGap_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TDPSide> :
192 template <typename TFreeEndGaps, typename TDPMatrixLocation, typename TDPSide>
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H A Dbanded_chain_alignment_impl.h433 typedef DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, in _computeCell()
465 …typename TSpec, typename TDPMatrixLocation, typename TGapCosts, typename TTracebackConfig, typenam…
480 typedef DPProfile_<BandedChainAlignment_<TSpec, TDPMatrixLocation>, in _computeCell()
544 typedef DPProfile_<BandedChainAlignment_<TSpec, TDPMatrixLocation>, in _computeCell()
577 typedef DPProfile_<BandedChainAlignment_<TSpec, TDPMatrixLocation>, in _computeCell()
614 typedef DPProfile_<BandedChainAlignment_<TSpec, TDPMatrixLocation>, in _computeCell()
647 typedef DPProfile_<BandedChainAlignment_<TSpec, TDPMatrixLocation>, in _computeCell()
748 typename TDPMatrixLocation, typename TGapCosts, typename TTraceback, typename TExecPolicy>
808 typename TScoreScheme, typename TFreeEndGaps, typename TDPMatrixLocation, typename TGaps,
1275 …pename TScoreSpecAnchor, typename TScoreSpecGap, typename TFreeEndGaps, typename TDPMatrixLocation,
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H A Dbanded_chain_alignment_traceback.h237 …uenceH, typename TSequenceV, typename TBandFlag, typename TFreeEndGaps, typename TDPMatrixLocation,
246 …DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, TTracebackSpec, TExe…
286 SEQAN_IF_CONSTEXPR (IsSameType<TDPMatrixLocation, BandedChainFinalDPMatrix>::VALUE)
335 SEQAN_IF_CONSTEXPR (IsSameType<TDPMatrixLocation, BandedChainInitialDPMatrix>::VALUE)
363 …typename TFreeEndGaps, typename TDPMatrixLocation, typename TGapCosts, typename TTracebackSpec, ty…
370 …DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, TTracebackSpec, TExe…
H A Dbanded_chain_alignment_scout.h134 template <typename TSpec, typename TDPMatrixLocation, typename TDPCell>
135 struct ScoutSpecForAlignmentAlgorithm_<BandedChainAlignment_<TSpec, TDPMatrixLocation>,
/dports/biology/seqan/seqan-library-2.4.0/include/seqan/seeds/
H A Dbanded_chain_alignment_profile.h81 template <typename TSpec = FreeEndGaps_<>, typename TDPMatrixLocation = BandedChainInnerDPMatrix>
88 template <typename TFreeEndGaps, typename TDPMatrixLocation, typename TGapCosts, typename TTracebac…
90 struct DPMetaColumn_<DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, …
110 template <typename TFreeEndGaps, typename TDPMatrixLocation, typename TGapCosts, typename TTracebac…
132 template <typename TFreeEndGaps, typename TDPMatrixLocation, typename TGapCosts, typename TTracebac…
180 template <typename TSpec, typename TDPMatrixLocation>
181 struct IsGlobalAlignment_<BandedChainAlignment_<TSpec, TDPMatrixLocation> > : False{};
187 template <typename TFreeEndGaps, typename TDPMatrixLocation, typename TDPSide>
188 struct IsFreeEndGap_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TDPSide> :
192 template <typename TFreeEndGaps, typename TDPMatrixLocation, typename TDPSide>
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H A Dbanded_chain_alignment_impl.h433 typedef DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, in _computeCell()
465 …typename TSpec, typename TDPMatrixLocation, typename TGapCosts, typename TTracebackConfig, typenam…
480 typedef DPProfile_<BandedChainAlignment_<TSpec, TDPMatrixLocation>, in _computeCell()
544 typedef DPProfile_<BandedChainAlignment_<TSpec, TDPMatrixLocation>, in _computeCell()
577 typedef DPProfile_<BandedChainAlignment_<TSpec, TDPMatrixLocation>, in _computeCell()
614 typedef DPProfile_<BandedChainAlignment_<TSpec, TDPMatrixLocation>, in _computeCell()
647 typedef DPProfile_<BandedChainAlignment_<TSpec, TDPMatrixLocation>, in _computeCell()
748 typename TDPMatrixLocation, typename TGapCosts, typename TTraceback, typename TExecPolicy>
808 typename TScoreScheme, typename TFreeEndGaps, typename TDPMatrixLocation, typename TGaps,
1275 …pename TScoreSpecAnchor, typename TScoreSpecGap, typename TFreeEndGaps, typename TDPMatrixLocation,
[all …]
H A Dbanded_chain_alignment_traceback.h237 …uenceH, typename TSequenceV, typename TBandFlag, typename TFreeEndGaps, typename TDPMatrixLocation,
246 …DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, TTracebackSpec, TExe…
286 SEQAN_IF_CONSTEXPR (IsSameType<TDPMatrixLocation, BandedChainFinalDPMatrix>::VALUE)
335 SEQAN_IF_CONSTEXPR (IsSameType<TDPMatrixLocation, BandedChainInitialDPMatrix>::VALUE)
363 …typename TFreeEndGaps, typename TDPMatrixLocation, typename TGapCosts, typename TTracebackSpec, ty…
370 …DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, TTracebackSpec, TExe…
H A Dbanded_chain_alignment_scout.h134 template <typename TSpec, typename TDPMatrixLocation, typename TDPCell>
135 struct ScoutSpecForAlignmentAlgorithm_<BandedChainAlignment_<TSpec, TDPMatrixLocation>,
/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/seeds/
H A Dbanded_chain_alignment_profile.h81 template <typename TSpec = FreeEndGaps_<>, typename TDPMatrixLocation = BandedChainInnerDPMatrix>
89 struct DPMetaColumn_<DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, …
110 struct DPMetaColumn_<DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, …
131 struct DPMetaColumn_<DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, …
152 struct DPMetaColumn_<DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, …
176 template <typename TSpec, typename TDPMatrixLocation>
177 struct IsGlobalAlignment_<BandedChainAlignment_<TSpec, TDPMatrixLocation> > : False{};
183 template <typename TFreeEndGaps, typename TDPMatrixLocation, typename TDPSide>
184 struct IsFreeEndGap_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TDPSide> :
188 template <typename TFreeEndGaps, typename TDPMatrixLocation, typename TDPSide>
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H A Dbanded_chain_alignment_impl.h396 …typename TCellDescriptor, typename TFreeEndGaps, typename TDPMatrixLocation, typename TTracebackCo…
429 typename TSpec, typename TDPMatrixLocation, typename TTracebackConfig>
482 …eqHValue, typename TSeqVValue, typename TScoringScheme, typename TSpec, typename TDPMatrixLocation,
505 …eqHValue, typename TSeqVValue, typename TScoringScheme, typename TSpec, typename TDPMatrixLocation,
532 …eqHValue, typename TSeqVValue, typename TScoringScheme, typename TSpec, typename TDPMatrixLocation,
555 …eqHValue, typename TSeqVValue, typename TScoringScheme, typename TSpec, typename TDPMatrixLocation,
667 typename TDPMatrixLocation, typename TGapCosts, typename TTraceback>
677 …typedef DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, TTraceback> … in _initiaizeBeginningOfBandedChain()
720 typename TScoreScheme, typename TFreeEndGaps, typename TDPMatrixLocation, typename TGaps,
1180 …pename TScoreSpecAnchor, typename TScoreSpecGap, typename TFreeEndGaps, typename TDPMatrixLocation,
[all …]
H A Dbanded_chain_alignment_traceback.h237 …uenceH, typename TSequenceV, typename TBandFlag, typename TFreeEndGaps, typename TDPMatrixLocation,
246 …DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, TTracebackSpec> cons…
286 if (IsSameType<TDPMatrixLocation, BandedChainFinalDPMatrix>::VALUE)
335 if (IsSameType<TDPMatrixLocation, BandedChainInitialDPMatrix>::VALUE)
359 typename TBandFlag, typename TFreeEndGaps, typename TDPMatrixLocation, typename TGapCosts, typename…
366 …DPProfile_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, TTracebackSpec> cons…
H A Dbanded_chain_alignment_scout.h134 template <typename TSpec, typename TDPMatrixLocation>
135 struct ScoutSpecForAlignmentAlgorithm_<BandedChainAlignment_<TSpec, TDPMatrixLocation> >