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Searched defs:gapsH (Results 1 – 25 of 38) sorted by relevance

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/dports/biology/seqan/seqan-library-2.4.0/include/seqan/align/
H A Dglobal_alignment_specialized.h66 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()
H A Dlocal_alignment_waterman_eggert_impl.h311 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()
H A Dlocal_alignment_enumeration_unbanded.h100 nextLocalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in nextLocalAlignment()
H A Dlocal_alignment_enumeration_banded.h101 nextLocalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in nextLocalAlignment()
H A Dlocal_alignment_unbanded.h200 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment()
221 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment()
H A Dlocal_alignment_banded_waterman_eggert_impl.h512 Gaps<TSequenceH, TGapsSpecH> & gapsH, in _localAlignment()
562 Gaps<TSequenceH, TGapsSpecH> & gapsH, in _localAlignmentNext()
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/align/
H A Dglobal_alignment_specialized.h66 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()
H A Dlocal_alignment_waterman_eggert_impl.h311 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()
H A Dlocal_alignment_enumeration_unbanded.h100 nextLocalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in nextLocalAlignment()
H A Dlocal_alignment_enumeration_banded.h101 nextLocalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in nextLocalAlignment()
H A Dlocal_alignment_unbanded.h200 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment()
221 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment()
H A Dlocal_alignment_banded_waterman_eggert_impl.h512 Gaps<TSequenceH, TGapsSpecH> & gapsH, in _localAlignment()
562 Gaps<TSequenceH, TGapsSpecH> & gapsH, in _localAlignmentNext()
/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/align/
H A Dglobal_alignment_specialized.h76 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()
H A Dlocal_alignment_waterman_eggert_impl.h309 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()
H A Dlocal_alignment_unbanded.h200 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment()
221 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment()
H A Dlocal_alignment_enumeration_unbanded.h100 nextLocalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in nextLocalAlignment()
H A Dlocal_alignment_banded.h105 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment()
127 TScoreValue localAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in localAlignment()
H A Dlocal_alignment_enumeration_banded.h101 nextLocalAlignment(Gaps<TSequenceH, TGapsSpecH> & gapsH, in nextLocalAlignment()
H A Dglobal_alignment_unbanded.h242 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()
H A Dglobal_alignment_banded.h157 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()
/dports/biology/seqan/seqan-library-2.4.0/share/doc/seqan/html/demos/dox/align_profile/
H A Dprofile_seq_frac_score.cpp14 Gaps<TProfileString> gapsH(profile); in main() local
H A Dprofile_seq_score.cpp14 Gaps<TProfileString> gapsH(profile); in main() local
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/demos/dox/align_profile/
H A Dprofile_seq_frac_score.cpp14 Gaps<TProfileString> gapsH(profile); in main() local
H A Dprofile_seq_score.cpp14 Gaps<TProfileString> gapsH(profile); in main() local
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/tests/align_profile/
H A Dtest_align_profile.cpp82 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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