| /dports/biology/gemma/GEMMA-0.98.3/src/ |
| H A D | vc.h | 101 const vector<size_t> &vec_cat, const gsl_vector *w,
105 const vector<size_t> &vec_cat, const gsl_vector *w,
110 const vector<size_t> &vec_cat, const gsl_vector *w,
128 const vector<size_t> &vec_cat, const vector<double> &v_pve,
|
| H A D | gemma_io.h | 162 const map<string, double> &mapRS2wA, vector<size_t> &vec_cat,
168 void Calcq(const size_t n_block, const vector<size_t> &vec_cat,
|
| H A D | gemma.cpp | 2007 vector<size_t> vec_cat, vec_ni; in BatchRun() local
2141 vector<size_t> vec_cat, vec_ni; in BatchRun() local
2433 vector<size_t> vec_cat, vec_size; in BatchRun() local
2481 vec_cat, w1, z, 0, Xz); in BatchRun()
2484 cPar.indicator_snp, vec_cat, w1, z, 0, Xz); in BatchRun()
2487 cPar.mindicator_snp, vec_cat, w1, z, Xz); in BatchRun()
2490 cPar.mindicator_snp, vec_cat, w1, z, Xz); in BatchRun()
2502 vec_cat, w, z, 0, XWz); in BatchRun()
2505 cPar.indicator_snp, vec_cat, w, z, 0, XWz); in BatchRun()
2508 cPar.mindicator_snp, vec_cat, w, z, XWz); in BatchRun()
[all …]
|
| H A D | vc.cpp | 2222 const vector<size_t> &vec_cat, const gsl_vector *w, in BimbamXwz() argument
2294 gsl_vector_view XWz_col = gsl_matrix_column(XWz, vec_cat[ns_test]); in BimbamXwz()
2316 const vector<size_t> &vec_cat, const gsl_vector *w, in PlinkXwz() argument
2443 const vector<size_t> &vec_cat, const gsl_vector *w, in MFILEXwz() argument
2461 vec_cat, w, z, ns_test, XWz); in MFILEXwz()
2464 vec_cat, w, z, ns_test, XWz); in MFILEXwz()
2762 d += gsl_vector_get(zwz, vec_cat[i]); in CalcCIss()
2763 gsl_vector_set(zwz, vec_cat[i], d); in CalcCIss()
2766 d += gsl_vector_get(zz, vec_cat[i]); in CalcCIss()
2767 gsl_vector_set(zz, vec_cat[i], d); in CalcCIss()
[all …]
|
| H A D | param.h | 368 gsl_vector *z, vector<size_t> &vec_cat);
|
| H A D | gemma_io.cpp | 3348 const map<string, double> &mapRS2wA, vector<size_t> &vec_cat, in ReadFile_beta() argument
3353 vec_cat.clear(); in ReadFile_beta()
3511 vec_cat.push_back(mapRS2cat.at(rs)); in ReadFile_beta()
3513 vec_cat.push_back(0); in ReadFile_beta()
3699 void Calcq(const size_t n_block, const vector<size_t> &vec_cat, in Calcq() argument
3725 for (size_t i = 0; i < vec_cat.size(); i++) { in Calcq()
3728 cat = vec_cat[i]; in Calcq()
3768 for (size_t i = 0; i < vec_cat.size(); i++) { in Calcq()
3771 cat = vec_cat[i]; in Calcq()
|
| H A D | param.cpp | 2354 gsl_vector *z, vector<size_t> &vec_cat) { in UpdateSNPnZ() argument
2357 vec_cat.clear(); in UpdateSNPnZ()
2376 vec_cat.push_back(mapRS2cat.at(rs)); in UpdateSNPnZ()
2402 vec_cat.push_back(mapRS2cat.at(rs)); in UpdateSNPnZ()
|