Compute phenotype values based on generated object of current generation

Compute phenotype values based on generated object of current generation

Usage

compute_phenotypes(
  X,
  B,
  otu_list,
  qtl_list,
  beta_qtl,
  beta_otu,
  Nqtl_y,
  Notu_y,
  se
)

Arguments

X

A matrix of the current generation genotypes, encoding with 0, 1 and 2.

B

A matrix of the CLR-transformed abundances of the current generation microbiome.

otu_list

List of causal OTUs for the phenotypes.

qtl_list

List of causal SNPs for the phenotypes.

beta_qtl

Alpha, the regression coefficients corresponding to the QTL effects on the phenotype. See calibrate_params_phenotypes().

beta_otu

Omega, the regression coefficients corresponding to taxa effects on the phenotype. See calibrate_params_phenotypes().

Nqtl_y

Integer, number of causal SNPs for the phenotypes.

Notu_y

Integer, number of causal OTUs for the phenotypes.

se

Phenotypes Standard deviation, see calibrate_params_phenotypes().

See also

calibrate_params_phenotypes()