| /dports/biology/infernal/infernal-1.1.3/hmmer/src/impl_vmx/ |
| H A D | vitscore.c | 270 P7_HMM *hmm = NULL; in main() local
360 P7_HMM *hmm = NULL; in utest_viterbi_score() local
487 P7_HMM *hmm = NULL; in main() local
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| /dports/biology/hmmer/hmmer-3.3/src/ |
| H A D | generic_stotrace.c | 236 P7_HMM *hmm = NULL; in main() local
370 P7_HMM *hmm = NULL; in main() local
451 P7_HMM *hmm = NULL; in main() local
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| H A D | hmmconvert.c | 37 P7_HMM *hmm = NULL; in main() local
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| H A D | mpisupport.c | 79 p7_hmm_MPISend(P7_HMM *hmm, int dest, int tag, MPI_Comm comm, char **buf, int *nalloc) in p7_hmm_MPISend()
128 p7_hmm_MPIPackSize(P7_HMM *hmm, MPI_Comm comm, int *ret_n) in p7_hmm_MPIPackSize()
190 p7_hmm_MPIPack(P7_HMM *hmm, char *buf, int n, int *pos, MPI_Comm comm) in p7_hmm_MPIPack()
267 P7_HMM *hmm = NULL; in p7_hmm_MPIUnpack() local
381 P7_HMM *hmm = NULL; in p7_hmm_MPIRecv() local
1554 P7_HMM *hmm = NULL; in main() local
1614 P7_HMM *hmm = NULL; in utest_HMMSendRecv() local
1657 P7_HMM *hmm = NULL; in utest_ProfileSendRecv() local
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| H A D | hmmstat.c | 32 P7_HMM *hmm = NULL; in main() local
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| H A D | tracealign.c | 97 p7_tracealign_Seqs(ESL_SQ **sq, P7_TRACE **tr, int nseq, int M, int optflags, P7_HMM *hmm, ESL_MSA … in p7_tracealign_Seqs()
236 p7_tracealign_computeTraces(P7_HMM *hmm, ESL_SQ **sq, int offset, int N, P7_TRACE **tr) in p7_tracealign_computeTraces()
389 p7_tracealign_getMSAandStats(P7_HMM *hmm, ESL_SQ **sq, int N, ESL_MSA **ret_msa, float **ret_pp, f… in p7_tracealign_getMSAandStats()
860 annotate_mm(ESL_MSA *msa, P7_HMM * hmm, const int *matuse, const int *matmap) in annotate_mm()
1146 P7_HMM *hmm = NULL; in main() local
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| H A D | p7_null3.c | 171 P7_HMM *hmm = NULL; in main() local
297 P7_HMM *hmm = NULL; in main() local
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| /dports/biology/hmmer/hmmer-3.3/src/impl_sse/ |
| H A D | vitscore.c | 269 P7_HMM *hmm = NULL; in main() local
359 P7_HMM *hmm = NULL; in utest_viterbi_score() local
486 P7_HMM *hmm = NULL; in main() local
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| /dports/biology/hmmer/hmmer-3.3/src/impl_vmx/ |
| H A D | vitscore.c | 270 P7_HMM *hmm = NULL; in main() local
360 P7_HMM *hmm = NULL; in utest_viterbi_score() local
487 P7_HMM *hmm = NULL; in main() local
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| /dports/biology/infernal/infernal-1.1.3/src/ |
| H A D | cm_modelconfig.c | 603 cp9_sw_config(CP9_t *hmm, float pentry, float pexit, int do_match_local_cm, int first_cm_ndtype) in cp9_sw_config()
784 cp9_renormalize_exits(CP9_t *hmm) in cp9_renormalize_exits()
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| /dports/biology/wise/wise2.4.1/src/HMMer2/ |
| H A D | emit.c | 40 EmitSequence(struct plan7_s *hmm, char **ret_dsq, int *ret_L, struct p7trace_s **ret_tr) in EmitSequence()
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| /dports/biology/infernal/infernal-1.1.3/hmmer/src/ |
| H A D | hmmconvert.c | 37 P7_HMM *hmm = NULL; in main() local
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| H A D | mpisupport.c | 79 p7_hmm_MPISend(P7_HMM *hmm, int dest, int tag, MPI_Comm comm, char **buf, int *nalloc) in p7_hmm_MPISend()
128 p7_hmm_MPIPackSize(P7_HMM *hmm, MPI_Comm comm, int *ret_n) in p7_hmm_MPIPackSize()
190 p7_hmm_MPIPack(P7_HMM *hmm, char *buf, int n, int *pos, MPI_Comm comm) in p7_hmm_MPIPack()
267 P7_HMM *hmm = NULL; in p7_hmm_MPIUnpack() local
381 P7_HMM *hmm = NULL; in p7_hmm_MPIRecv() local
1554 P7_HMM *hmm = NULL; in main() local
1614 P7_HMM *hmm = NULL; in utest_HMMSendRecv() local
1657 P7_HMM *hmm = NULL; in utest_ProfileSendRecv() local
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| H A D | hmmstat.c | 32 P7_HMM *hmm = NULL; in main() local
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| H A D | tracealign.c | 97 p7_tracealign_Seqs(ESL_SQ **sq, P7_TRACE **tr, int nseq, int M, int optflags, P7_HMM *hmm, ESL_MSA … in p7_tracealign_Seqs()
236 p7_tracealign_computeTraces(P7_HMM *hmm, ESL_SQ **sq, int offset, int N, P7_TRACE **tr) in p7_tracealign_computeTraces()
389 p7_tracealign_getMSAandStats(P7_HMM *hmm, ESL_SQ **sq, int N, ESL_MSA **ret_msa, float **ret_pp, f… in p7_tracealign_getMSAandStats()
860 annotate_mm(ESL_MSA *msa, P7_HMM * hmm, const int *matuse, const int *matmap) in annotate_mm()
1146 P7_HMM *hmm = NULL; in main() local
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| H A D | p7_null3.c | 171 P7_HMM *hmm = NULL; in main() local
297 P7_HMM *hmm = NULL; in main() local
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| /dports/audio/julius/julius-4.1.2/libsent/src/hmminfo/ |
| H A D | init_phmm.c | 97 hmminfo_free(HTK_HMM_INFO *hmm) in hmminfo_free()
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| H A D | rdhmmdef_options.c | 146 set_global_opt(FILE *fp, HTK_HMM_INFO *hmm) in set_global_opt()
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| /dports/biology/ugene/ugene-40.1/src/plugins_3rdparty/hmm2/src/u_build/ |
| H A D | HMMBuildDialogController.h | 85 plan7_s *hmm; variable
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| /dports/mail/exmh2/exmh-2.9.0/lib/ |
| H A D | uri.tcl | 272 proc Hook_MsgShowParseUri {msgPath hmm} {
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| /dports/biology/clustal-omega/clustal-omega-1.2.4/src/hhalign/ |
| H A D | hhhmm.h | 173 void copyHMMtoShadow(const HMM &hmm) { in copyHMMtoShadow()
184 void copyShadowToHMM(const HMM &hmm, const hmm_light rShadow) { in copyShadowToHMM()
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/corelib/test/ |
| H A D | test_hash.cpp | 172 bool TestMultimap(TMultimap& hmm, const string& map_name, const TKeys& keys) in TestMultimap()
302 hash_multimap<string, int> hmm; in Run() local
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| /dports/textproc/apertium/apertium-3.6.1/apertium/ |
| H A D | apertium_tagger_apply_new_rules.cc | 159 HMM hmm(&tagger_data_hmm); in main() local
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| /dports/biology/seqan-apps/seqan-seqan-v2.4.0/demos/tutorial/graph/ |
| H A D | graph_hmm.cpp | 24 THmm hmm; in main() local
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| /dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/utils/pairhmm/ |
| H A D | VectorPairHMMUnitTest.java | 42 PairHMM hmm; in testLikelihoodsFromHaplotypesForAvailableImplementations() local
|