For each patient, determines which loci have non-missing
data at both Day 0 and recurrence timepoints ("comparable"), and tallies
per-patient availability. A locus is comparable only if at least one
non-NA allele is present at that locus for both timepoints.
Usage
compute_locus_comparability(late_site, ids, locinames)
Arguments
- late_site
The late failures data for a single site (Site column
already removed), with Sample.ID and per-locus allele columns.
- ids
Character vector of patient IDs (without " Day 0"/" recurrence"
suffixes) to check.
- locinames
Character vector of locus names to check.
Value
A list with two elements:
- locus_summary
A data frame with one row per patient: patient_id,
n_available_d0, n_available_df, n_comparable_loci.
- is_locus_comparable
A logical matrix (patients x loci) indicating
which patient-locus pairs are comparable.
