Searched refs:columnscore (Results 1 – 13 of 13) sorted by relevance
| /dports/biology/hhsuite/hh-suite-3.3.0/src/ |
| H A D | hhdecl.cpp | 98 columnscore = 1; // Default column score is 1: null model pnul = 1/2 * (q_av(a)+p_av(a)) in Parameters()
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| H A D | hhfunc.cpp | 156 if (par.columnscore == 5 && !q->divided_by_local_bg_freqs) in PrepareQueryHMM()
199 t->IncludeNullModelInHMM(q, t, par.columnscore, in PrepareTemplateHMM()
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| H A D | hhhmm.h | 110 void IncludeNullModelInHMM(HMM* q, HMM* t, int columnscore,
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| H A D | hhdecl.h | 238 …int columnscore; // 0: no aa comp corr 1: 1/2(qav+tav) 2: template av freqs 3: query av fr… variable
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| H A D | hhsearch.cpp | 142 …nt> amino acid score (tja: template HMM at column j) (def=%i)\n", par.columnscore); in help()
490 par.columnscore = atoi(argv[++i]); in ProcessArguments()
493 par.columnscore = 5; in ProcessArguments()
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| H A D | hhalign.cpp | 125 … <int> amino acid score (tja: template HMM at column j) (def=%i)\n", par.columnscore); in help()
523 par.columnscore = 5; in ProcessArguments()
527 par.columnscore = atoi(argv[++i]); in ProcessArguments()
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| H A D | hhconsensus.cpp | 379 if (par.columnscore == 5 && !q->divided_by_local_bg_freqs) in main()
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| H A D | hhblits.cpp | 305 …t> amino acid score (tja: template HMM at column j) (def=%i)\n", par.columnscore); in help()
767 par.columnscore = atoi(argv[++i]); in ProcessArguments()
770 par.columnscore = 5; in ProcessArguments()
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| H A D | hhhmm.cpp | 2055 void HMM::IncludeNullModelInHMM(HMM* q, HMM* t, int columnscore, in IncludeNullModelInHMM() argument
2062 switch (columnscore) { in IncludeNullModelInHMM()
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| /dports/biology/clustal-omega/clustal-omega-1.2.4/src/hhalign/ |
| H A D | hhdecl-C.h | 194 …int columnscore; // 0: no aa comp corr 1: 1/2(qav+tav) 2: template av freqs 3: query av fr… variable
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| H A D | hhutil-C.h | 685 …par.columnscore=1; // Default column score is 1: null model pnul = 1/2 * (q_av(a)+p_av(a… in SetDefaults()
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| H A D | hhalign.cpp | 339 …sc <int> amino acid score (tja: template HMM at column j) (def=%i)\n",par.columnscore);
625 else if (!strcmp(argv[i],"-sc") && (i<argc-1)) par.columnscore=atoi(argv[++i]);
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| H A D | hhhmm-C.h | 1923 switch (par.columnscore) in IncludeNullModelInHMM()
1971 if (par.columnscore!=10) in IncludeNullModelInHMM()
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