/dports/biology/seqan/seqan-library-2.4.0/include/seqan/align/ |
H A D | global_alignment_specialized.h | 66 TScoreValue globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment() 100 int globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment() 121 int globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment()
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H A D | local_alignment_waterman_eggert_impl.h | 311 Gaps<TSequenceH, TGapsSpecH> & gapsH, in _smithWatermanDeclump() 531 _smithWatermanTrace(Gaps<TSourceH, TGapsSpecH> & gapsH, in _smithWatermanTrace() 688 _smithWaterman(Gaps<TSourceH, TGapsSpecH> & gapsH, in _smithWaterman() 730 _smithWatermanGetNext(Gaps<TSequenceH, TGapsSpecH> & gapsH, in _smithWatermanGetNext()
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H A D | local_alignment_enumeration_unbanded.h | 100 nextLocalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in nextLocalAlignment()
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H A D | local_alignment_enumeration_banded.h | 101 nextLocalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in nextLocalAlignment()
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H A D | local_alignment_unbanded.h | 200 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment() 221 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment()
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H A D | local_alignment_banded_waterman_eggert_impl.h | 512 Gaps<TSequenceH, TGapsSpecH> & gapsH, in _localAlignment() 562 Gaps<TSequenceH, TGapsSpecH> & gapsH, in _localAlignmentNext()
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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/align/ |
H A D | global_alignment_specialized.h | 66 TScoreValue globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment() 100 int globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment() 121 int globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment()
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H A D | local_alignment_waterman_eggert_impl.h | 311 Gaps<TSequenceH, TGapsSpecH> & gapsH, in _smithWatermanDeclump() 531 _smithWatermanTrace(Gaps<TSourceH, TGapsSpecH> & gapsH, in _smithWatermanTrace() 688 _smithWaterman(Gaps<TSourceH, TGapsSpecH> & gapsH, in _smithWaterman() 730 _smithWatermanGetNext(Gaps<TSequenceH, TGapsSpecH> & gapsH, in _smithWatermanGetNext()
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H A D | local_alignment_enumeration_unbanded.h | 100 nextLocalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in nextLocalAlignment()
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H A D | local_alignment_enumeration_banded.h | 101 nextLocalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in nextLocalAlignment()
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H A D | local_alignment_unbanded.h | 200 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment() 221 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment()
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H A D | local_alignment_banded_waterman_eggert_impl.h | 512 Gaps<TSequenceH, TGapsSpecH> & gapsH, in _localAlignment() 562 Gaps<TSequenceH, TGapsSpecH> & gapsH, in _localAlignmentNext()
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/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/align/ |
H A D | global_alignment_specialized.h | 76 TScoreValue globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment() 98 int globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment() 119 int globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment()
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H A D | local_alignment_waterman_eggert_impl.h | 309 Gaps<TSequenceH, TGapsSpecH> & gapsH, in _smithWatermanDeclump() 527 _smithWatermanTrace(Gaps<TSourceH, TGapsSpecH> & gapsH, in _smithWatermanTrace() 683 _smithWaterman(Gaps<TSourceH, TGapsSpecH> & gapsH, in _smithWaterman() 725 _smithWatermanGetNext(Gaps<TSequenceH, TGapsSpecH> & gapsH, in _smithWatermanGetNext()
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H A D | local_alignment_unbanded.h | 200 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment() 221 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment()
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H A D | local_alignment_enumeration_unbanded.h | 100 nextLocalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in nextLocalAlignment()
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H A D | local_alignment_banded.h | 105 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment() 127 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment()
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H A D | local_alignment_enumeration_banded.h | 101 nextLocalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in nextLocalAlignment()
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H A D | global_alignment_unbanded.h | 242 TScoreValue globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment() 269 TScoreValue globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment() 283 TScoreValue globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment() 298 TScoreValue globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment()
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H A D | global_alignment_banded.h | 157 TScoreValue globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment() 187 TScoreValue globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment() 203 TScoreValue globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment() 220 TScoreValue globalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in globalAlignment()
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/dports/biology/seqan/seqan-library-2.4.0/share/doc/seqan/html/demos/dox/align_profile/ |
H A D | profile_seq_frac_score.cpp | 14 Gaps<TProfileString> gapsH(profile); in main() local
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H A D | profile_seq_score.cpp | 14 Gaps<TProfileString> gapsH(profile); in main() local
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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/demos/dox/align_profile/ |
H A D | profile_seq_frac_score.cpp | 14 Gaps<TProfileString> gapsH(profile); in main() local
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H A D | profile_seq_score.cpp | 14 Gaps<TProfileString> gapsH(profile); in main() local
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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/tests/align_profile/ |
H A D | test_align_profile.cpp | 82 seqan::Gaps<TProfileString> gapsH(profile); in SEQAN_DEFINE_TEST() local 113 seqan::Gaps<TProfileString> gapsH(profile); in SEQAN_DEFINE_TEST() local
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