Home
last modified time | relevance | path

Searched refs:geno_mean (Results 1 – 6 of 6) sorted by relevance

/dports/biology/gemma/GEMMA-0.98.3/src/
H A Dgemma_io.cpp1120 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 …]
H A Dvarcov.cpp267 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()
H A Dvc.cpp2257 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 …]
H A Dgemma_io.h77 igzstream &infile, gsl_vector *geno, double &geno_mean);
79 ifstream &infile, gsl_vector *geno, double &geno_mean);
/dports/biology/plink/plink-ng-79b2df8c/1.9/
H A Dplink_assoc.c2900 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 …]
H A Dplink_family.c5147 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()