The following is in the log: [INFO] Drop missing genotypes
However, the N_INFORMATIVE column in the association file is always the total N of my cohort, not the number of variants with genotype for each variant. Is this a reporting issue, or is RVTESTS failing to drop missing genotypes.
I run the following, expecting missing genotypes to be dropped for any given variant:
The following is in the log:
[INFO] Drop missing genotypes
However, the
N_INFORMATIVE
column in the association file is always the total N of my cohort, not the number of variants with genotype for each variant. Is this a reporting issue, or is RVTESTS failing to drop missing genotypes.