Searched refs:geno_mean (Results 1 – 6 of 6) sorted by relevance
/dports/biology/gemma/GEMMA-0.98.3/src/ |
H A D | gemma_io.cpp | 1120 geno_mean = 0.0; in Plink_ReadOneSNP() 1495 geno_var += geno_mean * geno_mean * (double)n_miss; in BimbamKin() 1497 geno_var -= geno_mean * geno_mean; in BimbamKin() 1672 geno_var += geno_mean * geno_mean * (double)n_miss; in PlinkKin() 1674 geno_var -= geno_mean * geno_mean; in PlinkKin() 1766 geno_mean = 0; in ReadFile_geno() 1876 geno_mean = 0; in ReadFile_geno() 2826 geno_var += geno_mean * geno_mean * (double)n_miss; in BimbamKinUncentered() 2828 geno_var -= geno_mean * geno_mean; in BimbamKinUncentered() 3051 geno_var += geno_mean * geno_mean * (double)n_miss; in PlinkKin() [all …]
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H A D | varcov.cpp | 267 double geno_mean; in AnalyzeBimbam() local 307 Bimbam_ReadOneSNP(inc, indicator_idv, infile, geno, geno_mean); in AnalyzeBimbam() 308 gsl_vector_add_constant(geno, -1.0 * geno_mean); in AnalyzeBimbam() 367 double geno_mean; in AnalyzePlink() local 407 Plink_ReadOneSNP(t2, indicator_idv, infile, geno, geno_mean); in AnalyzePlink() 408 gsl_vector_add_constant(geno, -1.0 * geno_mean); in AnalyzePlink()
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H A D | vc.cpp | 2257 geno_mean = 0.0; in BimbamXwz() 2282 geno_var += geno_mean * geno_mean * (double)n_miss; in BimbamXwz() 2284 geno_var -= geno_mean * geno_mean; in BimbamXwz() 2365 geno_mean = 0.0; in PlinkXwz() 2409 geno_var += geno_mean * geno_mean * (double)n_miss; in PlinkXwz() 2411 geno_var -= geno_mean * geno_mean; in PlinkXwz() 2510 geno_mean = 0.0; in BimbamXtXwz() 2535 geno_var += geno_mean * geno_mean * (double)n_miss; in BimbamXtXwz() 2537 geno_var -= geno_mean * geno_mean; in BimbamXtXwz() 2659 geno_var += geno_mean * geno_mean * (double)n_miss; in PlinkXtXwz() [all …]
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H A D | gemma_io.h | 77 igzstream &infile, gsl_vector *geno, double &geno_mean); 79 ifstream &infile, gsl_vector *geno, double &geno_mean);
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/dports/biology/plink/plink-ng-79b2df8c/1.9/ |
H A D | plink_assoc.c | 2900 double geno_mean; in qassoc_adapt_thread() local 3077 double geno_mean; in qassoc_adapt_lin_thread() local 3138 geno_mean_sq = geno_mean * geno_mean; in qassoc_adapt_lin_thread() 3139 geno_mean_coeff2 = 1 - 2 * geno_mean; in qassoc_adapt_lin_thread() 3140 geno_mean_coeff3 = 4 - 4 * geno_mean; in qassoc_adapt_lin_thread() 3251 double geno_mean; in qassoc_maxt_thread() local 3463 double geno_mean; in qassoc_maxt_lin_thread() local 3533 geno_mean_sq = geno_mean * geno_mean; in qassoc_maxt_lin_thread() 3534 geno_mean_coeff2 = 1 - 2 * geno_mean; in qassoc_maxt_lin_thread() 3635 double geno_mean; in qassoc_set_thread() local [all …]
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H A D | plink_family.c | 5147 double geno_mean; in qfam_regress() local 5189 geno_mean = geno_sum * nind_recip; in qfam_regress() 5192 geno_var = (geno_ssq - geno_sum * geno_mean) * dxx; in qfam_regress() 5197 qt_g_covar = (qt_g_prod - qt_sum * geno_mean) * dxx; in qfam_regress()
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