arXiv subjects

Shuichi Nishino

Publications and source records attributed to Shuichi Nishino.

10 recordsLinked to original sources

arXiv2026

Statistical Testing for Multiple Instance Learning via Selective Inference with Applications to Computational Pathology

Multiple instance learning (MIL) is widely used in computational pathology because it enables weakly supervised analysis of whole-slide images (WSIs) without requiring patch-level annotations. In attention-based MIL, instances with high attention scores are often interpreted as diagnostically important regions and used as visual explanations. However, attention scores alone cannot determine whether selected high-attention instances are significantly different from normal instances, limiting the reliability of attention-based explanations. In this paper, we formulate the evaluation of high-attention instances as a statistical hypothesis testing problem. Specifically, we assess whether a selected high-attention instance significantly deviates from a representative normal reference instance selected based on feature similarity. A major challenge is that both the target instance and the reference instance are selected through data-dependent procedures, rendering standard hypothesis testing invalid. To address this issue, we introduce a selective inference (SI) framework that explicitly accounts for the selection events induced by attention-based instance selection and adaptive reference selection, thereby enabling the computation of valid selective $p$-values conditional on these events. Experiments demonstrate Type-I error control on synthetic and MNIST-based data and practical applicability to pathological WSIs, with higher statistical power than the conventional over-conditioning approach.

cs.CV↗

arXiv2026

Automatic Statistical Test for Rationally Expressible Algorithms by Selective Inference, with Applications to Feature Selection

Selective inference (SI) provides statistically valid $p$-values for hypotheses selected by applying an algorithm to the data, correcting for the bias that arises when the same data are used both to select and to test a hypothesis. Developing an SI procedure for a new algorithm, however, has required an expert to derive, and then implement, the selection event, i.e., the conditions under which the hypothesis is selected. Repeating this specialized effort for every new algorithm is why exact SI has so far been available for only a narrow class. We propose AutoSI, a framework that removes this barrier in two ways. First, AutoSI constructs the selection event automatically from the algorithm's individual operations, so the user only writes the algorithm as ordinary NumPy-like code and derives nothing by hand. Second, AutoSI broadens the class of selection events SI can handle: existing exact methods are limited to selection events characterized by linear or quadratic inequalities in the data, whereas AutoSI covers any algorithm expressible through rational functions of the data (ratios of polynomials). We prove that the $p$-values computed by AutoSI are exactly valid in finite samples. We demonstrate AutoSI on three feature-selection methods, each written in a few dozen lines of code. One of these methods, the lasso with its tuning parameter selected by cross-validated $R^2$, cannot be handled within existing exact SI frameworks and is made possible by AutoSI. Experiments on synthetic and real datasets show that the resulting $p$-values control the type I error rate (i.e., the false positive rate) at the nominal level while retaining high power.

stat.ML↗

arXiv2026

Post-ADC Inference: Valid Inference After Active Data Collection

The validity of statistical inference depends critically on how data are collected. When data gathered through active data collection (ADC) are reused for a post-hoc inferential task, conventional inference can fail because the sampling is adaptively biased toward regions favored by the collection strategy. This issue is especially pronounced in black-box optimization, where sequential model-based optimization (SMBO) methods such as the tree-structured Parzen estimator (TPE) and Gaussian process upper confidence bound (GP-UCB) preferentially concentrate evaluations in promising regions. We study statistical inference on actively collected data when the inferential target is constructed in a data-dependent manner after data collection. To enable valid inference in this setting, we propose post-ADC inference, a framework that accounts for the biases arising from both the active data collection process and the subsequent data-driven target construction. Our method builds on selective inference and provides valid $p$-values and confidence intervals that correct for both sources of bias. The framework applies to a broad class of ADC processes by imposing only assumptions on the observation noise, without requiring any assumptions on the underlying black-box function or the surrogate model used by the SMBO algorithm. Empirical results also show that post-ADC inference provides valid inference for data collected by GP-UCB and TPE.

stat.ML↗

arXiv2026

Statistical Testing Framework for Clustering Pipelines by Selective Inference

A data analysis pipeline is a structured sequence of steps that transforms raw data into meaningful insights by integrating multiple analysis algorithms. In many practical applications, analytical findings are obtained only after data pass through several data-dependent procedures within such pipelines. In this study, we address the problem of quantifying the statistical reliability of results produced by data analysis pipelines. As a proof of concept, we focus on clustering pipelines that identify cluster structures from complex and heterogeneous data through procedures such as outlier detection, feature selection, and clustering. We propose a novel statistical testing framework to assess the significance of clustering results obtained through these pipelines. Our framework, based on selective inference, enables the systematic construction of valid statistical tests for clustering pipelines composed of predefined components. We prove that the proposed test controls the type I error rate at any nominal level and demonstrate its validity and effectiveness through experiments on synthetic and real datasets.

stat.ML↗

arXiv2025

Quantifying Statistical Significance of Deep Nearest Neighbor Anomaly Detection via Selective Inference

In real-world applications, anomaly detection (AD) often operates without access to anomalous data, necessitating semi-supervised methods that rely solely on normal data. Among these methods, deep k-nearest neighbor (deep kNN) AD stands out for its interpretability and flexibility, leveraging distance-based scoring in deep latent spaces.Despite its strong performance, deep kNN lacks a mechanism to quantify uncertainty-an essential feature for critical applications such as industrial inspection. To address this limitation, we propose a statistical framework that quantifies the significance of detected anomalies in the form of p-values, thereby enabling control over false positive rates at a user-specified significance level (e.g.,0.05). A central challenge lies in managing selection bias, which we tackle using Selective Inference-a principled method for conducting inference conditioned on data-driven selections. We evaluate our method on diverse datasets and demonstrate that it provides reliable AD well-suited for industrial use cases.

stat.ML↗

arXiv2025

Statistical Test for Saliency Maps of Graph Neural Networks via Selective Inference

Graph Neural Networks (GNNs) have gained prominence for their ability to process graph-structured data across various domains. However, interpreting GNN decisions remains a significant challenge, leading to the adoption of saliency maps for identifying salient subgraphs composed of influential nodes and edges. Despite their utility, the reliability of GNN saliency maps has been questioned, particularly in terms of their robustness to input noise. In this study, we propose a statistical testing framework to rigorously evaluate the significance of saliency maps. Our main contribution lies in addressing the inflation of the Type I error rate caused by double-dipping of data, leveraging the framework of Selective Inference. Our method provides statistically valid $p$-values while controlling the Type I error rate, ensuring that identified salient subgraphs contain meaningful information rather than random artifacts. The method is applicable to a variety of saliency methods with piecewise linearity (e.g., Class Activation Mapping). We validate our method on synthetic and real-world datasets, demonstrating its capability in assessing the reliability of GNN interpretations.

stat.ML↗

arXiv2025

Change Point Detection in the Frequency Domain with Statistical Reliability

Effective condition monitoring in complex systems requires identifying change points (CPs) in the frequency domain, as the structural changes often arise across multiple frequencies. This paper extends recent advancements in statistically significant CP detection, based on Selective Inference (SI), to the frequency domain. The proposed SI method quantifies the statistical significance of detected CPs in the frequency domain using $p$-values, ensuring that the detected changes reflect genuine structural shifts in the target system. We address two major technical challenges to achieve this. First, we extend the existing SI framework to the frequency domain by appropriately utilizing the properties of discrete Fourier transform (DFT). Second, we develop an SI method that provides valid $p$-values for CPs where changes occur across multiple frequencies. Experimental results demonstrate that the proposed method reliably identifies genuine CPs with strong statistical guarantees, enabling more accurate root-cause analysis in the frequency domain of complex systems.

stat.ML↗

arXiv2025

si4onnx: A Python package for Selective Inference in Deep Learning Models

In this paper, we introduce si4onnx, a package for performing selective inference on deep learning models. Techniques such as CAM in XAI and reconstruction-based anomaly detection using VAE can be interpreted as methods for identifying significant regions within input images. However, the identified regions may not always carry meaningful significance. Therefore, evaluating the statistical significance of these regions represents a crucial challenge in establishing the reliability of AI systems. si4onnx is a Python package that enables straightforward implementation of hypothesis testing with controlled type I error rates through selective inference. It is compatible with deep learning models constructed using common frameworks such as PyTorch and TensorFlow.

cs.LG↗

arXiv2024

Statistical Test for Feature Selection Pipelines by Selective Inference

A data analysis pipeline is a structured sequence of steps that transforms raw data into meaningful insights by integrating various analysis algorithms. In this paper, we propose a novel statistical test to assess the significance of data analysis pipelines in feature selection problems. Our approach enables the systematic development of valid statistical tests applicable to any feature selection pipeline composed of predefined components. We develop this framework based on selective inference, a statistical technique that has recently gained attention for data-driven hypotheses. As a proof of concept, we consider feature selection pipelines for linear models, composed of three missing value imputation algorithms, three outlier detection algorithms, and three feature selection algorithms. We theoretically prove that our statistical test can control the probability of false positive feature selection at any desired level, and demonstrate its validity and effectiveness through experiments on synthetic and real data. Additionally, we present an implementation framework that facilitates testing across any configuration of these feature selection pipelines without extra implementation costs.

stat.ML↗

arXiv2024

Statistical Test for Auto Feature Engineering by Selective Inference

Auto Feature Engineering (AFE) plays a crucial role in developing practical machine learning pipelines by automating the transformation of raw data into meaningful features that enhance model performance. By generating features in a data-driven manner, AFE enables the discovery of important features that may not be apparent through human experience or intuition. On the other hand, since AFE generates features based on data, there is a risk that these features may be overly adapted to the data, making it essential to assess their reliability appropriately. Unfortunately, because most AFE problems are formulated as combinatorial search problems and solved by heuristic algorithms, it has been challenging to theoretically quantify the reliability of generated features. To address this issue, we propose a new statistical test for generated features by AFE algorithms based on a framework called selective inference. As a proof of concept, we consider a simple class of tree search-based heuristic AFE algorithms, and consider the problem of testing the generated features when they are used in a linear model. The proposed test can quantify the statistical significance of the generated features in the form of $p$-values, enabling theoretically guaranteed control of the risk of false findings.

stat.ML↗