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Searched refs:ni_test (Results 1 – 22 of 22) sorted by relevance

/dports/biology/gemma/GEMMA-0.98.3/src/
H A Dparam.cpp476 ni_test = 0; in ReadFiles()
1033 ni_test = 0; in CheckData()
1038 ni_test++; in CheckData()
1428 double d, tr, r = (double)ni_test / (double)(ni_test - 1); in compKtoV()
1436 gsl_matrix_const_submatrix(G, 0, i * ni_test, ni_test, ni_test); in compKtoV()
1439 gsl_matrix_const_submatrix(G, 0, j * ni_test, ni_test, ni_test); in compKtoV()
1441 gsl_matrix_submatrix(KiKj, 0, t * ni_test, ni_test, ni_test); in compKtoV()
1792 gsl_matrix_submatrix(K, 0, i * ni_test, ni_test, ni_test); in CalcS()
1798 gsl_matrix_submatrix(A, 0, i * ni_test, ni_test, ni_test); in CalcS()
2028 ni_test = 0; in ProcessCvtPhen()
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H A Dlmm.cpp74 ni_test = cPar.ni_test; in CopyFromParam()
481 size_t ni_test = p->ni_test; in LogL_f() local
516 0.5 * (double)ni_test * (safe_log((double)ni_test) - safe_log(2 * M_PI) - 1.0); in LogL_f()
539 size_t ni_test = p->ni_test; in LogL_dev1() local
637 size_t ni_test = p->ni_test; in LogL_dev2() local
714 size_t ni_test = p->ni_test; in LogL_dev12() local
794 size_t ni_test = p->ni_test; in LogRL_f() local
859 size_t ni_test = p->ni_test; in LogRL_dev1() local
938 size_t ni_test = p->ni_test; in LogRL_dev2() local
1028 size_t ni_test = p->ni_test; in LogRL_dev12() local
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H A Dbslmm.cpp93 ni_test = cPar.ni_test; in CopyFromParam()
460 for (size_t i = 0; i < ni_test; ++i) { in CalcPosterior()
495 cHyp.pve = d / (double)ni_test; in CalcPosterior()
542 for (size_t i = 0; i < ni_test; ++i) { in CalcPosterior()
611 cHyp.pge = d / (double)ni_test; in CalcPosterior()
650 cHyp.pve = d / (double)ni_test; in CalcCC_PVEnZ()
668 cHyp.pge = d / (double)ni_test; in CalcCC_PVEnZ()
671 cHyp.pve = cHyp.pge + d / (double)ni_test; in CalcCC_PVEnZ()
905 gsl_vector *z = gsl_vector_alloc(ni_test); in MCMC()
1528 cHyp.pve = d / (double)ni_test; in CalcPosterior()
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H A Dgemma_io.cpp687 int ni_test = 0; in ReadFile_geno() local
689 ni_test += indicator_idv[i]; in ReadFile_geno()
895 size_t ni_test = 0; in ReadFile_bed() local
897 ni_test += indicator_idv[i]; in ReadFile_bed()
1749 int ni_test = UtX->size1; in ReadFile_geno() local
1954 size_t ni_test = UtX->size1; in ReadFile_bed() local
2827 geno_var /= (double)ni_test; in BimbamKinUncentered()
2876 matrix_kin, 0, ni_test * i_vc, ni_test, ni_test); in BimbamKinUncentered()
2892 gsl_matrix_submatrix(matrix_kin, 0, ni_test * i_vc, ni_test, ni_test); in BimbamKinUncentered()
3102 matrix_kin, 0, ni_test * i_vc, ni_test, ni_test); in PlinkKin()
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H A Dvarcov.cpp261 size_t ni_test = 0; in AnalyzeBimbam() local
263 ni_test += indicator_idv[i]; in AnalyzeBimbam()
266 gsl_vector *geno = gsl_vector_alloc(ni_test); in AnalyzeBimbam()
272 for (size_t i = 0; i < ni_test; i++) { in AnalyzeBimbam()
361 size_t ni_test = 0; in AnalyzePlink() local
363 ni_test += indicator_idv[i]; in AnalyzePlink()
366 gsl_vector *geno = gsl_vector_alloc(ni_test); in AnalyzePlink()
372 for (size_t i = 0; i < ni_test; i++) { in AnalyzePlink()
H A Dprdt.cpp134 size_t ni_test = u_hat->size, ni_total = G->size1; in AddBV() local
136 gsl_matrix *Goo = gsl_matrix_alloc(ni_test, ni_test); in AddBV()
137 gsl_matrix *Gfo = gsl_matrix_alloc(ni_total - ni_test, ni_test); in AddBV()
138 gsl_matrix *U = gsl_matrix_alloc(ni_test, ni_test); in AddBV()
139 gsl_vector *eval = gsl_vector_alloc(ni_test); in AddBV()
140 gsl_vector *Utu = gsl_vector_alloc(ni_test); in AddBV()
142 gsl_permutation *pmt = gsl_permutation_alloc(ni_test); in AddBV()
H A Dldr.cpp60 ni_test = cPar.ni_test; in CopyFromParam()
H A Dlm.cpp63 ni_test = cPar.ni_test; in CopyFromParam()
197 << ni_test - snpInfo[i].n_miss << "\t" << snpInfo[i].a_minor in WriteFiles()
457 x_mean /= (double)(ni_test - n_miss); in AnalyzeBimbam()
459 for (size_t i = 0; i < ni_test; ++i) { in AnalyzeBimbam()
600 x_mean /= (double)(ni_test - n_miss); in AnalyzePlink()
602 for (size_t i = 0; i < ni_test; ++i) { in AnalyzePlink()
H A Dbslmmdap.cpp83 ni_test = cPar.ni_test; in CopyFromParam()
486 for (size_t i = 0; i < ni_test; ++i) { in CalcMarginal()
497 logm = -0.5 * logdet_H - 0.5 * tau * Hi_yy + 0.5 * log(tau) * (double)ni_test; in CalcMarginal()
522 for (size_t i = 0; i < ni_test; ++i) { in CalcMarginal()
559 0.5 * log(tau) * (double)ni_test; in CalcMarginal()
585 gsl_matrix *Xgamma = gsl_matrix_alloc(ni_test, 1); in DAP_CalcBF()
590 tau = (double)ni_test / tau; in DAP_CalcBF()
H A Dlmm.h39 size_t ni_test; variable
71 size_t ni_total, ni_test; // Number of individuals. variable
H A Dvc.cpp2237 size_t ni_test = XWz->size1; in BimbamXwz() local
2283 geno_var /= (double)ni_test; in BimbamXwz()
2286 for (size_t i = 0; i < ni_test; ++i) { in BimbamXwz()
2331 size_t ni_test = XWz->size1; in PlinkXwz() local
2410 geno_var /= (double)ni_test; in PlinkXwz()
2413 for (size_t i = 0; i < ni_test; ++i) { in PlinkXwz()
2493 size_t ni_test = XWz->size1; in BimbamXtXwz() local
2536 geno_var /= (double)ni_test; in BimbamXtXwz()
2584 size_t ni_test = XWz->size1; in PlinkXtXwz() local
2660 geno_var /= (double)ni_test; in PlinkXtXwz()
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H A Dgemma.cpp1956 gsl_matrix *K = gsl_matrix_safe_alloc(cPar.ni_test, cPar.n_vc * cPar.ni_test); in BatchRun()
1957 gsl_matrix *A = gsl_matrix_safe_alloc(cPar.ni_test, cPar.n_vc * cPar.ni_test); in BatchRun()
1961 gsl_vector *y = gsl_vector_safe_alloc(cPar.ni_test); in BatchRun()
1980 gsl_vector_set(ns, cPar.n_vc, cPar.ni_test); in BatchRun()
2119 gsl_matrix *K = gsl_matrix_safe_alloc(cPar.ni_test, cPar.n_vc * cPar.ni_test); in BatchRun()
2120 gsl_matrix *A = gsl_matrix_safe_alloc(cPar.ni_test, cPar.n_vc * cPar.ni_test); in BatchRun()
2122 gsl_vector *y = gsl_vector_safe_alloc(cPar.ni_test); in BatchRun()
2210 gsl_vector_set(s, cPar.n_vc, cPar.ni_test); in BatchRun()
2856 gsl_vector *y = gsl_vector_safe_alloc(cPar.ni_test); in BatchRun()
2966 gsl_vector *y = gsl_vector_safe_alloc(cPar.ni_test); in BatchRun()
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H A Dldr.h44 size_t ni_test, ns_test; // Number of individuals & SNPs used variable
H A Dlm.h45 size_t ni_total, ni_test; // Number of individuals. variable
H A Dparam.h233 size_t ni_total, ni_test, ni_cvt, ni_study, ni_ref; variable
363 const size_t ni_test, const gsl_vector *ns,
H A Dgemma_io.h106 const bool calc_K, const size_t ni_test,
110 gsl_matrix *K, const bool calc_K, const size_t ni_test,
H A Dmvlmm.h58 size_t ni_total, ni_test; // Number of individuals. variable
H A Dbslmmdap.h54 size_t ni_test, ns_test; // Number of individuals and SNPs variable
H A Dbslmm.h71 size_t ni_test, ns_test; // Num. individuals & SNPs used in analysis. variable
H A Dmvlmm.cpp80 ni_test = cPar.ni_test; in CopyFromParam()
3245 x_mean /= (double)(ni_test - n_miss); in AnalyzeBimbam()
3247 for (size_t i = 0; i < ni_test; ++i) { in AnalyzeBimbam()
3720 x_mean /= (double)(ni_test - n_miss); in AnalyzePlink()
3722 for (size_t i = 0; i < ni_test; ++i) { in AnalyzePlink()
4231 x_mean /= (double)(ni_test - n_miss); in AnalyzeBimbamGXE()
4233 for (size_t i = 0; i < ni_test; ++i) { in AnalyzeBimbamGXE()
4706 x_mean /= (double)(ni_test - n_miss); in AnalyzePlinkGXE()
4708 for (size_t i = 0; i < ni_test; ++i) { in AnalyzePlinkGXE()
/dports/graphics/blender/blender-2.91.0/extern/quadriflow/3rd/lemon-1.3.1/test/
H A Dnagamochi_ibaraki_test.cc70 NagamochiIbaraki<Graph, CapMap> ni_test(g, cap); in checkNagamochiIbarakiCompile() local
71 const NagamochiIbaraki<Graph, CapMap>& const_ni_test = ni_test; in checkNagamochiIbarakiCompile()
73 ni_test.init(); in checkNagamochiIbarakiCompile()
74 ni_test.start(); in checkNagamochiIbarakiCompile()
75 b = ni_test.processNextPhase(); in checkNagamochiIbarakiCompile()
76 ni_test.run(); in checkNagamochiIbarakiCompile()
/dports/math/lemon/lemon-1.3.1/test/
H A Dnagamochi_ibaraki_test.cc70 NagamochiIbaraki<Graph, CapMap> ni_test(g, cap); in checkNagamochiIbarakiCompile() local
71 const NagamochiIbaraki<Graph, CapMap>& const_ni_test = ni_test; in checkNagamochiIbarakiCompile()
73 ni_test.init(); in checkNagamochiIbarakiCompile()
74 ni_test.start(); in checkNagamochiIbarakiCompile()
75 b = ni_test.processNextPhase(); in checkNagamochiIbarakiCompile()
76 ni_test.run(); in checkNagamochiIbarakiCompile()