Hi,

I am new to hail and trying to implement binary trait in hail.

The set up is

1, The phenotype is in 1, 0 format

2, I imported plink file using hl.import_plink and set quant_pheno= **False** and set it to mt

3, I imported covariate using hl.import_table and use annotate_cols to incorporate covariates to the mt

4, last I did something like, gwas =hl.logistic_regression_rows(test=‘wald’,

y=[mt.is_case, mt.is_case],

x=mt.GT.n_alt_alleles()

, covariates= [1, mt.covar.1, mt.covar.2, …])

Question:

1, Why is my is case in bool format?

2, Can you also help me to understand this error? Error summary: HailException: For logistic regression, y at index 0 must be non-constant

3, I am not sure if I am implementing logistic regression correctly, can you let me know if there is anything I should change?

Thank you!

-Fengyi