| /dports/biology/ugene/ugene-40.1/src/plugins_3rdparty/phylip/src/ |
| H A D | dnadist.h | 23 freqar, freqcy, freqgr, freqty, cvi, invarfrac, sumrates, fracchange;
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| H A D | dnadist.cpp | 66 freqar, freqcy, freqgr, freqty, cvi, invarfrac, sumrates, fracchange; variable
889 getbasefreqs(freqa, freqc, freqg, freqt, &freqr, &freqy, &freqar, &freqcy, in getinput()
923 getbasefreqs(freqa, freqc, freqg, freqt, &freqr, &freqy, &freqar, &freqcy, in getinput()
1156 (xx2[0] * freqar + xx2[(long)G - (long)A] * freqgr) + in makev()
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| H A D | DistanceMatrix.cpp | 102 …getbasefreqs(freqa, freqc, freqg, freqt, &freqr, &freqy, &freqar, &freqcy, &freqgr, &freqty, &ttra… in calculateOutOfAlignment()
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| H A D | seq.cpp | 379 double *freqr, double *freqy, double *freqar, double *freqcy, in getbasefreqs() argument
400 *freqar = freqa / *freqr; in getbasefreqs()
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| /dports/biology/fastdnaml/fastDNAml_1.2.2/source/ |
| H A D | fastDNAml.h | 113 freqar, freqcy, freqgr, freqty; member
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| H A D | fastDNAml.c | 1964 rdta->freqar = rdta->freqa * rdta->invfreqr; in reportfreqs()
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| /dports/biology/migrate/migrate-3.6.11/src/ |
| H A D | tree.c | 3083 freqar = seq->basefrequencies[NUC_AR]; in nuview_sequence()
3204 sumr1 = freqar * xx1t0 + freqgr * xx1t2; in nuview_sequence()
3205 sumr2 = freqar * xx2t0 + freqgr * xx2t2; in nuview_sequence()
3276 freqar = seq->basefrequencies[NUC_AR]; in nuview_sequence_slow()
3425 sumr1 = freqar * xx1t0 + freqgr * xx1t2; in nuview_sequence_slow()
3426 sumr2 = freqar * xx2t0 + freqgr * xx2t2; in nuview_sequence_slow()
3613 freqar = seq->basefrequencies[NUC_AR]; in pseudonu_seq()
3669 sumr1 = freqar * xx1t0 + freqgr * xx1t2; in pseudonu_seq()
3817 freqar = seq->basefrequencies[NUC_AR]; in pseudonu_seq_slow()
3967 sumr1 = freqar * xx1t0 + freqgr * xx1t2; in pseudonu_seq_slow()
[all …]
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| H A D | migration.h | 194 MYREAL freqar, freqcy, freqgr, freqty; //!< frequency of transitions member
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| /dports/biology/fluctuate/fluctuate1.4/ |
| H A D | fluctuate.h | 283 double freqa, freqc, freqg, freqt, freqr, freqy, freqar, freqcy, member
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| H A D | getdata.c | 326 dna->freqar = dna->freqa / dna->freqr; in getbasefreqs()
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| H A D | fluctuate.c | 1765 sumr1 = dna->freqar * xx1[baseA] + dna->freqgr * xx1[baseG]; in nuview()
1766 sumr2 = dna->freqar * xx2[baseA] + dna->freqgr * xx2[baseG]; in nuview()
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| /dports/biology/lamarc/lamarc-2.1.8/src/datalike/ |
| H A D | dlmodel.cpp | 669 freqar(FLAGDOUBLE), freqcy(FLAGDOUBLE), in F84Model()
761 freqar = src.freqar; in CopyMembers()
854 freqar = freqa / pur; in Finalize()
1047 sumPur = freqar*catDLs1[baseA] + freqgr*catDLs1[baseG]; in ComputeSiteDLs()
1098 sumPur = freqar*catDLs2[baseA] + freqgr*catDLs2[baseG]; in ComputeSiteDLs()
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| H A D | dlmodel.h | 240 double freqar, freqcy, freqgr, freqty; variable
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| /dports/biology/recombine/recombine1.41/ |
| H A D | recombine.h | 385 double freqa, freqc, freqg, freqt, freqr, freqy, freqar, freqcy, member
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| H A D | getdata.c | 1197 dna->freqar = dna->freqa / dna->freqr; in getbasednafreqs()
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| H A D | recombine.c | 4098 sumr1 = dna->freqar * xx1[k][baseA] + dna->freqgr * xx1[k][baseG]; in calcrange()
4128 sumr2 = dna->freqar * xx2[k][baseA] + dna->freqgr * xx2[k][baseG]; in calcrange()
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| /dports/biology/seaview/seaview/csrc/ |
| H A D | seq.c | 373 double *freqr, double *freqy, double *freqar, double *freqcy, in getbasefreqs() argument
394 *freqar = freqa / *freqr; in getbasefreqs()
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