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onlineFDR Parity Profile¶

This project is aligned against the Bioconductor release semantics of onlineFDR (2.18.0, Bioconductor release 3.22) for overlapping methods. Local and CI parity execution requires R 4.5.x to use this Bioconductor track.

Live Parity Policy¶

Parity tests are mandatory and run against the live R package through rpy2. The suite fails fast when:

rpy2 is unavailable
R is unavailable
onlineFDR is unavailable
onlineFDR is not pinned to 2.18.0

The parity harness uses deterministic long p-value sequences and checks:

Exact equality for rejection decisions
Alpha-threshold closeness with absolute tolerance 1e-12 (rel=0)

Status Labels¶

Parity: Same method-level testing semantics as onlineFDR for overlapping scope.
IntentionalDivergence: Deliberate API/product difference.
Extension: Implemented here but not a direct onlineFDR counterpart.

Method Mapping¶

Method	Status	Notes
`Addis`	`Parity`	Enforces `0 < tau < 1` and `0 <= lambda_ < tau`.
`Saffron`	`Parity`	Candidate-based online FDR as in `onlineFDR`.
`LordThree`	`Parity`	Sequential LORD-3 semantics.
`LordPlusPlus`	`Parity`	LORD++ semantics under strict guaranteed payout mode (`reward == alpha`).
`LordDiscard`	`Parity`	First-rejection state keyed to first discovery time.
`LordDependent`	`Parity`	Dependence-robust LORD variant for the supported reference regime.
`Lond`	`Parity`	Original/modified and dependent options supported.
`Gai`	`Parity`	Alpha-investing family equivalent.
`AlphaSpending`	`Parity`	Boundary uses `p_t <= alpha_t`.
`OnlineFallback`	`Parity`	Boundary uses `p_t <= alpha_t`.
`BatchBH`	`Parity`	Batch online BH semantics.
`BatchPRDS`	`Parity`	Batch PRDS variant.
`BatchStoreyBH`	`Parity`	`R+` computed on same-size batch via replacement, not append.
`BatchBY`	`Extension`	Added here as an additional dependence-robust batch method.
`LORDMemoryDecay`	`Extension`	Not a direct `onlineFDR` release method.
`BatchBHOfficial`	`Extension`	Additional implementation profile of batch BH logic.
Stateful `test_one` / `test_batch` API	`IntentionalDivergence`	True-online interface by design.
Date-level internal randomization	`IntentionalDivergence`	Not done internally; caller controls ordering.
Asynchronous `*star` wrappers	`IntentionalDivergence`	Not yet implemented in this package.

References¶