| /dports/biology/gcta/gcta_1.26.0_src/ |
| H A D | gcta.h | 109 …ml_priors_var, vector<int> drop, bool no_lrt, double prevalence, bool no_constrain, bool mlmassoc …
120 …r<int> drop, bool no_lrt, double prevalence, double prevalence2, bool no_constrain, bool ignore_Ce…
157 …ter, vector<double> reml_priors, vector<double> reml_priors_var, bool no_constrain, bool within_fa…
158 …ter, vector<double> reml_priors, vector<double> reml_priors_var, bool no_constrain, bool inbred, b…
243 …double> &reml_priors_var, double prevalence, double prevalence2, bool no_constrain, bool no_lrt, b…
244 … &Hi, eigenVector &Py, eigenVector &varcmp, bool prior_var_flag, bool no_constrain, bool reml_biva…
257 double lgL_reduce_mdl(bool no_constrain);
274 double lgL_fix_rg(eigenVector &prev_varcmp, bool no_constrain);
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| H A D | option.cpp | 99 …e, pred_rand_eff = false, est_fix_eff = false, blup_snp_flag = false, no_constrain = false, reml_l… in option() local
568 no_constrain = true; in option()
1064 …covar_file, covar_file, mphen, MaxIter, reml_priors, reml_priors_var, no_constrain, within_family,… in option()
1065 …covar_file, covar_file, mphen, MaxIter, reml_priors, reml_priors_var, no_constrain, make_grm_inbre… in option()
1113 …covar_file, covar_file, mphen, MaxIter, reml_priors, reml_priors_var, no_constrain, within_family,… in option()
1114 …covar_file, covar_file, mphen, MaxIter, reml_priors, reml_priors_var, no_constrain, make_grm_inbre… in option()
1118 …_priors, reml_priors_var, reml_drop, no_lrt, prevalence, prevalence2, no_constrain, ignore_Ce, fix… in option()
1120 …MaxIter, reml_priors, reml_priors_var, reml_drop, no_lrt, prevalence, no_constrain, mlma_flag, wit… in option()
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| H A D | bivar_reml.cpp | 15 …r<int> drop, bool no_lrt, double prevalence, double prevalence2, bool no_constrain, bool ignore_Ce… in fit_bivar_reml() argument
288 …, est_fix_eff, reml_priors, reml_priors_var, prevalence, prevalence2, no_constrain, no_lrt, false); in fit_bivar_reml()
382 double gcta::lgL_fix_rg(eigenVector &prev_varcmp, bool no_constrain) { in lgL_fix_rg() argument
412 double lgL = reml_iteration(Vi_X, Xt_Vi_X_i, Hi, Py, varcmp, false, no_constrain, true); in lgL_fix_rg()
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| H A D | est_hsq.cpp | 171 …ml_priors_var, vector<int> drop, bool no_lrt, double prevalence, bool no_constrain, bool mlmassoc,… in fit_reml() argument
422 …reml(pred_rand_eff, est_fix_eff, reml_priors, reml_priors_var, prevalence, -2.0, no_constrain, no_… in fit_reml()
616 …double> &reml_priors_var, double prevalence, double prevalence2, bool no_constrain, bool no_lrt, b… in reml() argument
645 …_iteration(Vi_X, Xt_Vi_X_i, Hi, Py, varcmp, reml_priors_var_flag | reml_priors_flag, no_constrain); in reml()
665 lgL_rdu_mdl = lgL_reduce_mdl(no_constrain); in reml()
673 lgL_fixed_rg = lgL_fix_rg(varcmp, no_constrain); in reml()
864 double gcta::lgL_reduce_mdl(bool no_constrain) { in lgL_reduce_mdl() argument
879 double lgL = reml_iteration(Vi_X, Xt_Vi_X_i, Hi, Py, varcmp, false, no_constrain); in lgL_reduce_mdl()
884 … &Hi, eigenVector &Py, eigenVector &varcmp, bool prior_var_flag, bool no_constrain, bool reml_biva… in reml_iteration() argument
951 if (!no_constrain) constrain_num = constrain_varcmp(varcmp); in reml_iteration()
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| H A D | mlm_assoc.cpp | 15 …ter, vector<double> reml_priors, vector<double> reml_priors_var, bool no_constrain, bool within_fa… in mlma() argument
192 reml(false, true, reml_priors, reml_priors_var, -2.0, -2.0, no_constrain, true, true); in mlma()
346 …ter, vector<double> reml_priors, vector<double> reml_priors_var, bool no_constrain, bool inbred, b… in mlma_loco() argument
472 reml(false, true, reml_priors, reml_priors_var, -2.0, -2.0, no_constrain, true, true); in mlma_loco()
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