The Benjamini-Hochberg (BH) procedure is widely used to control the false detection rate (FDR) in multiple testing.

Instead, we apply powerful machine learning models for one-class (Moya et al., 1993) or

We propose a sequential test for detecting arbitrary distribution shifts that allows conformal test martingales (CTMs) to work under a fixed, reference-conditional setting. Existing CTM detectors construct test martingales by continually growing a reference set with each incoming sample, using it to assess how atypical the new sample is relative to past observations. While this design yields anytime-valid type-I error control, it suffers from test-time contamination: after a change, post-shift observations enter the reference set and dilute the evidence for distribution shift, increasing detection delay and reducing power. In contrast, our method avoids contamination by design by comparing each new sample to a fixed null reference dataset. Our main technical contribution is a robust martingale construction that remains valid conditional on the null reference data, achieved by explicitly accounting for the estimation error in the reference distribution induced by the finite reference set. This yields anytime-valid type-I error control together with guarantees of asymptotic power one and bounded expected detection delay. Empirically, our method detects shifts faster than standard CTMs, providing a powerful and reliable distribution-shift detector.

We study the problem of offline changepoint localization in a distribution-free setting. One observes a vector of data with a single changepoint, assuming that the data before and after the changepoint are iid (or more generally exchangeable) from arbitrary and unknown distributions. The goal is to produce a finite-sample confidence set for the index at which the change occurs without making any other assumptions. Existing methods often rely on parametric assumptions, tail conditions, or asymptotic approximations, or only produce point estimates. In contrast, our distribution-free algorithm, CONformal CHangepoint localization (CONCH), only leverages exchangeability arguments to construct confidence sets with finite sample coverage. By proving a conformal Neyman-Pearson lemma, we derive principled score functions that yield informative (small) sets. Moreover, with such score functions, the normalized length of the confidence set shrinks to zero under weak assumptions. We also establish a universality result showing that any distribution-free changepoint localization method must be an instance of CONCH. Experiments suggest that CONCH delivers precise confidence sets even in challenging settings involving images or text.

Conformal novelty detection is a classical machine learning task for which uncertainty quantification is essential for providing reliable results. Recent work has shown that the BH procedure applied to conformal p-values controls the false discovery rate (FDR). Unfortunately, the BH procedure can lead to over-optimistic assessments near the rejection threshold, with an increase of false discoveries at the margin as pointed out by Soloff et al. (2024). This issue is solved therein by the support line (SL) correction, which is proven to control the boundary false discovery rate (bFDR) in the independent, non-conformal setting. The present work extends the SL method to the conformal setting: first, we show that the SL procedure can violate the bFDR control in this specific setting. Second, we propose several alternatives that provably control the bFDR in the conformal setting. Finally, numerical experiments with both synthetic and real data support our theoretical findings and show the relevance of the new proposed procedures.

Detecting chemical modifications on RNA molecules remains a key challenge in epitranscriptomics. Traditional reverse transcription-based sequencing methods introduce enzyme- and sequence-dependent biases and fragment RNA molecules, confounding the accurate mapping of modifications across the transcriptome. Nanopore direct RNA sequencing offers a powerful alternative by preserving native RNA molecules, enabling the detection of modifications at single-molecule resolution. However, current computational tools can identify only a limited subset of modification types within well-characterized sequence contexts for which ample training data exists. Here, we introduce a model-free computational method that reframes modification detection as an anomaly detection problem, requiring only canonical (unmodified) RNA reads without any other annotated data. For each nanopore read, our approach extracts robust, modification-sensitive features from the raw ionic current signal at a site using the signature transform, then computes an anomaly score by comparing the resulting feature vector to its nearest neighbors in an unmodified reference dataset. We convert anomaly scores into statistical p-values to enable anomaly detection at both individual read and site levels. Validation on densely-modified \textit{E. coli} rRNA demonstrates that our approach detects known sites harboring diverse modification types, without prior training on these modifications. We further applyied this framework to dengue virus (DENV) transcripts and mammalian mRNAs. For DENV sfRNA, it led to revealing a novel 2'-O-methylated site, which we validate orthogonally by qRT-PCR assays. These results demonstrate that our model-free approach operates robustly across different types of RNAs and datasets generated with different nanopore sequencing chemistries.

This paper presents a conformal prediction method for classification in highly imbalanced and open-set settings, where there are many possible classes and not all may be represented in the data. Existing approaches require a finite, known label space and typically involve random sample splitting, which works well when there is a sufficient number of observations from each class. Consequently, they have two limitations: (i) they fail to provide adequate coverage when encountering new labels at test time, and (ii) they may become overly conservative when predicting previously seen labels. To obtain valid prediction sets in the presence of unseen labels, we compute and integrate into our predictions a new family of conformal p-values that can test whether a new data point belongs to a previously unseen class. We study these p-values theoretically, establishing their optimality, and uncover an intriguing connection with the classical Good--Turing estimator for the probability of observing a new species. To make more efficient use of imbalanced data, we also develop a selective sample splitting algorithm that partitions training and calibration data based on label frequency, leading to more informative predictions. Despite breaking exchangeability, this allows maintaining finite-sample guarantees through suitable re-weighting. With both simulated and real data, we demonstrate our method leads to prediction sets with valid coverage even in challenging open-set scenarios with infinite numbers of possible labels, and produces more informative predictions under extreme class imbalance.

Changepoint localization aims to provide confidence sets for a changepoint (if one exists). Existing methods either relying on strong parametric assumptions or providing only asymptotic guarantees or focusing on a particular kind of change(e.g., change in the mean) rather than the entire distributional change. A method (possibly the first) to achieve distribution-free changepoint localization with finite-sample validity was recently introduced by \cite{dandapanthula2025conformal}. However, while they proved finite sample coverage, there was no analysis of set size. In this work, we provide rigorous theoretical guarantees for their algorithm. We also show the consistency of a point estimator for change, and derive its convergence rate without distributional assumptions. Along that line, we also construct a distribution-free consistent test to assess whether a particular time point is a changepoint or not. Thus, our work provides unified distribution-free guarantees for changepoint detection, localization, and testing. In addition, we present various finite sample and asymptotic properties of the conformal $p$-value in the distribution change setup, which provides a theoretical foundation for many applications of the conformal $p$-value. As an application of these properties, we construct distribution-free consistent tests for exchangeability against distribution-change alternatives and a new, computationally tractable method of optimizing the powers of conformal tests. We run detailed simulation studies to corroborate the performance of our methods and theoretical results. Together, our contributions offer a comprehensive and theoretically principled approach to distribution-free changepoint inference, broadening both the scope and credibility of conformal methods in modern changepoint analysis.