Ops

The ops module provides small workflow utilities for checking the analysis environment, generating synthetic UKB-like data, inspecting missingness, tracking pipeline snapshots, and removing withdrawn participants.

Scope

Function	Role
`ops_setup()`	Check dx CLI, RAP authentication, and key R package dependencies
`ops_toy()`	Generate synthetic cohort, association, or forest-plot data
`ops_na()`	Summarise missing values across columns
`ops_snapshot()`	Record named checkpoints during data preparation
`ops_snapshot_cols()`	Retrieve columns stored in a snapshot
`ops_snapshot_diff()`	Compare columns between two snapshots
`ops_snapshot_remove()`	Remove columns added after a snapshot
`ops_set_safe_cols()`	Protect columns from snapshot-based removal
`ops_withdraw()`	Exclude UK Biobank withdrawn participants

Workflow Role

Use ops_setup() at the beginning of a RAP session, then use ops_toy() for offline examples and tests. During real analysis, ops_snapshot() gives each pipeline stage a named checkpoint so column changes can be inspected and rolled back when needed.

Review Focus

input validation for flags, thresholds, seeds, labels, and file paths;
clear behavior for empty snapshot history;
strict handling of malformed or empty withdrawal files;
predictable synthetic data for examples, tests, and plotting templates.