Return the per-variant LD-mismatch diagnostics table
(SLALOM or DENTIST output) attached to a sumstats entry by
summaryStatsQc when zMismatchQc was not
"none". Convenience accessor over
getQcInfo(x)$entryAudit[[entry]]$ldMismatchDiagnostics.
Usage
getQcDiagnostics(x, entry = 1L, ...)
# S4 method for class 'SumStatsBase'
getQcDiagnostics(x, entry = 1L, ...)
Arguments
- x
A GwasSumStats or QtlSumStats object.
- entry
Integer index (default 1) of the entry whose diagnostics
table to return. When NULL, returns a named list of every
entry's diagnostics keyed by entry index.
- ...
Unused.
Value
A data.frame of per-variant diagnostics (columns
include variant_id plus the SLALOM / DENTIST output
columns), NULL when no diagnostics were preserved for that
entry, or a named list of such data.frames when entry =
NULL.