Utils¶

The API for utils functions in ./sushie/utils.py file.

Functions¶

sushie.utils.make_pip(alpha) → Array[source]

The function to calculate posterior inclusion probability (PIP).

sushie.utils.rint(y_val) → Array[source]

Perform rank inverse normalization transformation.

sushie.utils.ols(X, ...) → Tuple[Array, Array, Array][source]

Perform ordinary linear regression using QR Factorization.

sushie.utils.regress_covar(X, ...) → Tuple[Array, Array][source]

Regress phenotypes and genotypes on covariates and return the residuals.

sushie.utils.estimate_her(...) → Tuple[float, Array, float, float][source]

Calculate proportion of expression variation explained by genotypes (cis-heritability; \(h_g^2\)).