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Computer Vision · Classification and Understanding

Wenhao Tang, Rong Qin, Heng Fang, Fengtao Zhou, Hao CHEN, Xiang Li, Ming-Ming Cheng

Pre-trained encoders for offline feature extraction followed by multiple instance learning (MIL) aggregators have become the dominant paradigm in computational pathology (CPath), benefiting cancer diagnosis and prognosis. However, performance limitations arise from the absence of encoder fine-tuning for downstream tasks and disjoint optimization with MIL. While slide-level supervised end-to-end (E2E) learning is an intuitive solution to this issue, it faces challenges such as high computational demands and suboptimal results. These limitations motivate us to revisit E2E learning. We argue that prior work neglects inherent E2E optimization challenges, leading to performance disparities compared to traditional two-stage methods. In this paper, we pioneer the elucidation of optimization challenge caused by sparse-attention MIL and propose a novel MIL called ABMILX. ABMILX mitigates this problem through global correlation-based attention refinement and multi-head mechanisms. With the efficient multi-scale random patch sampling strategy, an E2E trained ResNet with ABMILX surpasses SOTA foundation models under the two-stage paradigm across multiple challenging benchmarks, while remaining computationally efficient ($<$ 10 RTX3090 GPU hours). We demonstrate the potential of E2E learning in CPath and calls for greater research focus in this area. The code is https://github.com/DearCaat/E2E-WSI-ABMILX.

Applications · Time Series

Jialin Chen, Ziyu Zhao, Gaukhar Nurbek, Aosong Feng, Ali Maatouk, Leandros Tassiulas, Yifeng Gao, Rex Ying

The ubiquity of dynamic data in domains such as weather, healthcare, and energy underscores a growing need for effective interpretation and retrieval of time-series data. These data are inherently tied to domain-specific contexts, such as clinical notes or weather narratives, making cross-modal retrieval essential not only for downstream tasks but also for developing robust time-series foundation models by retrieval-augmented generation (RAG). Despite the increasing demand, time-series retrieval remains largely underexplored. Existing methods often lack semantic grounding, struggle to align heterogeneous modalities, and have limited capacity for handling multi-channel signals. To address this gap, we propose TRACE, a generic multimodal retriever that grounds time-series embeddings in aligned textual context. TRACE enables fine-grained channel-level alignment and employs hard negative mining to facilitate semantically meaningful retrieval. It supports flexible cross-modal retrieval modes, including Text-to-Timeseries and Timeseries-to-Text, effectively linking linguistic descriptions with complex temporal patterns. By retrieving semantically relevant pairs, TRACE enriches downstream models with informative context, leading to improved predictive accuracy and interpretability. Beyond a static retrieval engine, TRACE also serves as a powerful standalone encoder, with lightweight task-specific tuning that refines context-aware representations while maintaining strong cross-modal alignment. These representations achieve state-of-the-art performance on downstream forecasting and classification tasks. Extensive experiments across multiple domains highlight its dual utility, as both an effective encoder for downstream applications and a general-purpose retriever to enhance time-series models.

Theory · Learning Theory

Santiago Mazuelas

Methods for split conformal prediction leverage calibration samples to transform any prediction rule into a set-prediction rule that complies with a target coverage probability. Existing methods provide remarkably strong performance guarantees with minimal computational costs. However, they require the use calibration samples composed by labeled examples different to those used for training. This requirement can be highly inconvenient, as it prevents the use of all labeled examples for training and may require acquiring additional labels solely for calibration. This paper presents an effective methodology for split conformal prediction with unsupervised calibration for classification tasks. In the proposed approach, set-prediction rules are obtained using unsupervised calibration samples together with supervised training samples previously used to learn the classification rule. Theoretical and experimental results show that the presented methods can achieve performance comparable to that with supervised calibration, at the expenses of a moderate degradation in performance guarantees and computational efficiency.

Computer Vision · Classification and Understanding

Zhichao Sun, Huazhang Hu, Yidong Ma, Gang Liu, Yibo Chen, Xu Tang, Yao Hu, Yongchao Xu

With the exponential growth of data, traditional object detection methods are increasingly struggling to handle vast vocabulary object detection tasks effectively. We analyze two key limitations of classification-based detectors: positive gradient dilution, where rare positive categories receive insufficient learning signals, and hard negative gradient dilution, where discriminative gradients are overwhelmed by numerous easy negatives. To address these challenges, we propose CQ-DINO, a category query-based object detection framework that reformulates classification as a contrastive task between object queries and learnable category queries. Our method introduces image-guided query selection, which reduces the negative space by adaptively retrieving top-K relevant categories per image via cross-attention, thereby rebalancing gradient distributions and facilitating implicit hard example mining. Furthermore, CQ-DINO flexibly integrates explicit hierarchical category relationships in structured datasets (e.g., V3Det) or learns implicit category correlations via self-attention in generic datasets (e.g., COCO). Experiments demonstrate that CQ-DINO achieves superior performance on the challenging V3Det benchmark (surpassing previous methods by 2.1% AP) while maintaining competitiveness in COCO. Our work provides a scalable solution for real-world detection systems requiring wide category coverage.

General Machine Learning · Representation Learning

Guanming Zhang, David Heeger, Stefano Martiniani

Contrastive self-supervised learning based on point-wise comparisons has been widely studied for vision tasks. In the visual cortex of the brain, neuronal responses to distinct stimulus classes are organized into geometric structures known as neural manifolds. Accurate classification of stimuli can be achieved by effectively separating these manifolds, akin to solving a packing problem. We introduce Contrastive Learning As Manifold Packing (CLAMP), a self-supervised framework that recasts representation learning as a manifold packing problem. CLAMP introduces a loss function inspired by the potential energy of short-range repulsive particle systems, such as those encountered in the physics of simple liquids and jammed packings. In this framework, each class consists of sub-manifolds embedding multiple augmented views of a single image. The sizes and positions of the sub-manifolds are dynamically optimized by following the gradient of a packing loss. This approach yields interpretable dynamics in the embedding space that parallel jamming physics, and introduces geometrically meaningful hyperparameters within the loss function. Under the standard linear evaluation protocol, which freezes the backbone and trains only a linear classifier, CLAMP achieves competitive performance with state-of-the-art self-supervised models. Furthermore, our analysis reveals that neural manifolds corresponding to different categories emerge naturally and are effectively separated in the learned representation space, highlighting the potential of CLAMP to bridge insights from physics, neural science, and machine learning.

Computer Vision · Classification and Understanding

Tianhong Zhou, xu yin, Yingtao Zhu, Chuxi Xiao, Haiyang Bian, Lei Wei, Xuegong Zhang

Vision–language models (VLMs) exhibit strong zero-shot generalization on natural images and show early promise in interpretable medical image analysis. However, existing benchmarks do not systematically evaluate whether these models truly reason like human clinicians or merely imitate superficial patterns. To address this gap, we propose DrVD-Bench, the first multimodal benchmark for clinical visual reasoning. DrVD-Bench consists of three modules: Visual Evidence Comprehension, Reasoning Trajectory Assessment, and Report Generation Evaluation, comprising a total of 7,789 image–question pairs. Our benchmark covers 20 task types, 17 diagnostic categories, and five imaging modalities—CT, MRI, ultrasound, radiography, and pathology. DrVD-Bench is explicitly structured to reflect the clinical reasoning workflow from modality recognition to lesion identification and diagnosis. We benchmark 19 VLMs, including general-purpose and medical-specific, open-source and proprietary models, and observe that performance drops sharply as reasoning complexity increases. While some models begin to exhibit traces of human-like reasoning, they often still rely on shortcut correlations rather than grounded visual understanding. DrVD-Bench offers a rigorous and structured evaluation framework to guide the development of clinically trustworthy VLMs.

Social Aspects · Trustworthy Machine Learning

Jean-Baptiste Fermanian, Mohamed Hebiri, Joseph Salmon

Conformal prediction methods are statistical tools designed to quantify uncertainty and generate predictive sets with guaranteed coverage probabilities. This work introduces an innovative refinement to these methods for classification tasks, specifically tailored for scenarios where multiple observations (multi-inputs) of a single instance are available at prediction time. Our approach is particularly motivated by applications in citizen science, where multiple images of the same plant or animal are captured by individuals. Our method integrates the information from each observation into conformal prediction, enabling a reduction in the size of the predicted label set while preserving the required class-conditional coverage guarantee. The approach is based on the aggregation of conformal p-values computed from each observation of a multi-input. By exploiting the exact distribution of these p-values, we propose a general aggregation framework using an abstract scoring function, encompassing many classical statistical tools. Knowledge of this distribution also enables refined versions of standard strategies, such as majority voting. We evaluate our method on simulated and real data, with a particular focus on Pl@ntNet, a prominent citizen science platform that facilitates the collection and identification of plant species through user-submitted images.

Deep Learning · Graph Neural Networks

Luciano Vinas, Arash Amini

We consider the empirical distribution of the embeddings of a $k$-layer polynomial GNN on a semi-supervised node classification task and prove a central limit theorem for them. Assuming a community based model for the underlying graph, with growing average degree $\nu_n\to\infty$, we show that the empirical distribution of the centered features, when scaled by $\nu_{n}^{k-1/2}$ converge in 1-Wasserstein distance to a centered stable mixture of multivariate normal distributions. In addition, the joint empirical distribution of uncentered features and labels when normalized by $\nu_n^k$ approach that of mixture of multivariate normal distributions, with stable means and covariance matrices vanishing as $\nu_n^{-1}$. We explicitly identify the asymptotic means and covariances, showing that the mixture collapses towards a 1-D version as $k$ is increased. Our results provides a precise and nuanced lens on how oversmoothing presents itself in the large graph limit, in the sparse regime. In particular, we show that training with cross-entropy on these embeddings is asymptotically equivalent to training on these nearly collapsed Gaussian mixtures.

Computer Vision · Vision Models & Multimodal

Junhong Shen, Kushal Tirumala, Michihiro Yasunaga, Ishan Misra, Luke Zettlemoyer, LILI YU, Chunting Zhou

Most existing image tokenizers encode images into a fixed number of tokens or patches, overlooking the inherent variability in image complexity and introducing unnecessary computate overhead for simpler images. To address this, we propose Content-Adaptive Tokenizer (CAT), which dynamically adjusts representation capacity based on the image content and encodes simpler images into fewer tokens. We design (1) a caption-based evaluation system that leverages LLMs to predict content complexity and determine the optimal compression ratio for an image, and (2) a novel nested VAE architecture that performs variable-rate compression in a single model. Trained on images with varying complexity, CAT achieves an average of 15% reduction in rFID across seven detail-rich datasets containing text, humans, and complex textures. On natural image datasets like ImageNet and COCO, it reduces token usage by 18% while maintaining high-fidelity reconstructions. We further evaluate CAT on two downstream tasks. For image classification, CAT consistently improves top-1 accuracy across five datasets spanning diverse domains. For image generation, it boosts training throughput by 23% on ImageNet, leading to more efficient learning and improved FIDs over fixed-token baselines.

Deep Learning · Algorithms

Shakir Yousefi, Andreas Plesner, Till Aczel, Roger Wattenhofer

Modern neural networks exhibit state-of-the-art performance on many existing benchmarks, but their high computational requirements and energy usage cause researchers to explore more efficient solutions for real-world deployment. Differentiable logic gate networks (DLGNs) learns a large network of logic gates for efficient image classification. However, learning a network that can solve simple problems like CIFAR-10 or CIFAR-100 can take days to weeks to train. Even then, almost half of the neurons remains unused, causing a \emph{discretization gap}. This discretization gap hinders real-world deployment of DLGNs, as the performance drop between training and inference negatively impacts accuracy. We inject Gumbel noise with a straight-through estimator during training to significantly speed up training, improve neuron utilization, and decrease the discretization gap. We theoretically show that this results from implicit Hessian regularization, which improves the convergence properties of DLGNs. We train networks $4.5 \times$ faster in wall-clock time, reduce the discretization gap by 98\%, and reduce the number of unused gates by 100\%.

Applications · Neuroscience, Cognitive Science

Yu (Eric) Qian, Wilson Geisler, Xue-Xin Wei

Previous studies have compared neural activities in the visual cortex to representations in deep neural networks trained on image classification. Interestingly, while some suggest that their representations are highly similar, others argued the opposite. Here, we propose a new approach to characterize the similarity of the decision strategies of two observers (models or brains) using decision variable correlation (DVC). DVC quantifies the image-by-image correlation between the decoded decisions based on the internal neural representations in a classification task. Thus, it can capture task-relevant information rather than general representational alignment. We evaluate DVC using monkey V4/IT recordings and network models trained on image classification tasks. We find that model–model similarity is comparable to monkey-monkey similarity, whereas model–monkey similarity is consistently lower. Strikingly, DVC decreases with increasing network performance on ImageNet-1k. Adversarial training does not improve model–monkey similarity in task-relevant dimensions assessed using DVC, although it markedly increases the model–model similarity. Similarly, pre-training on larger datasets does not improve model–monkey similarity. These results suggest a divergence between the task-relevant representations in monkey V4/IT and those learned by models trained on image classification tasks.

Computer Vision · Vision Models & Multimodal

Marianna Nezhurina, Tomer Porian, Giovanni Puccetti, Tommie Kerssies, Romain Beaumont, Mehdi Cherti, Jenia Jitsev

In studies of transferable learning, scaling laws are obtained for various important foundation models to predict their properties and performance at larger scales. Taking language-vision learning as example, we show here how scaling law derivation can also be used for model and dataset comparison, allowing to decide which procedure is to be preferred for pre-training. Full scaling laws based on dense measurements across a wide span of model and samples seen scales are derived for two important language-vision learning procedures, CLIP and MaMMUT, that use either contrastive only or contrastive and captioning text generative loss. For the first time, we use derived scaling laws to compare both models and three open datasets, DataComp-1.4B, Re-LAION-1.4B and DFN-1.4B, while ensuring sufficient prediction accuracy on held out points. From comparison, we obtain evidence for (i) MaMMUT's stronger improvement with scale and better sample efficiency than standard CLIP (ii) DFN-1.4B outperforming other open datasets. To strengthen validity of the comparison, we show scaling laws for various downstream tasks, classification, retrieval, and segmentation, observing consistently the same scaling trends for models and datasets across tasks. We show that comparison can also be performed when deriving scaling laws with a constant learning rate schedule, reducing compute cost. Accurate derivation of scaling laws provides thus means to perform model and dataset comparison on aligned common compute axis across large scale span, avoiding misleading conclusions based on measurements from few isolated single reference scales only. This paves road for guided collective improvement of open foundation models and training datasets, as scaling law based comparisons from various studies executed in common frame can be combined to identify overall better procedures. We release all the pre-trained models with their intermediate checkpoints, including openMaMMUT-L/14, which achieves 80.3% zero-shot ImageNet-1k accuracy, trained on 12.8B samples from DataComp-1.4B. Code for reproducing experiments in the paper and raw experiments data can be found at https://github.com/LAION-AI/scaling-laws-for-comparison.

Theory · Learning Theory

Santiago Mazuelas, Veronica Alvarez

Boosting methods often achieve excellent classification accuracy, but can experience notable performance degradation in the presence of label noise. Existing robust methods for boosting provide theoretical robustness guarantees for certain types of label noise, and can exhibit only moderate performance degradation. However, previous theoretical results do not account for realistic types of noise and finite training sizes, and existing robust methods can provide unsatisfactory accuracies, even without noise. This paper presents methods for robust minimax boosting (RMBoost) that minimize worst-case error probabilities and are robust to general types of label noise. In addition, we provide finite-sample performance guarantees for RMBoost with respect to the error obtained without noise and with respect to the best possible error (Bayes risk). The experimental results corroborate that RMBoost is not only resilient to label noise but can also provide strong classification accuracy.

Deep Learning · Graph Neural Networks

Katharina Limbeck, Lydia Mezrag, Guy Wolf, Bastian Rieck

Graph Neural Networks (GNNs) have shown significant success for graph-based tasks. Motivated by the prevalence of large datasets in real-world applications, pooling layers are crucial components of GNNs. By reducing the size of input graphs, pooling enables faster training and potentially better generalisation. However, existing pooling operations often optimise for the learning task at the expense of discarding fundamental graph structures, thus reducing interpretability. This leads to unreliable performance across dataset types, downstream tasks and pooling ratios. Addressing these concerns, we propose novel graph pooling layers for structure-aware pooling via edge collapses. Our methods leverage diffusion geometry and iteratively reduce a graph’s size while preserving both its metric structure and its structural diversity. We guide pooling using *magnitude*, an isometry-invariant diversity measure, which permits us to control the fidelity of the pooling process. Further, we use the *spread* of a metric space as a faster and more stable alternative ensuring computational efficiency. Empirical results demonstrate that our methods (i) achieve top performance compared to alternative pooling layers across a range of diverse graph classification tasks, (ii) preserve key spectral properties of the input graphs, and (iii) retain high accuracy across varying pooling ratios.

Computer Vision · Classification and Understanding

Yi Wang, Jiaze Wang, Ziyu Guo, Renrui Zhang, Donghao Zhou, Guangyong Chen, Anfeng Liu, Pheng-Ann Heng

Point Cloud Transformers have become a cornerstone in 3D representation for their ability to model long-range dependencies via self-attention. However, these models tend to overemphasize salient regions while neglecting other informative regions, which limits feature diversity and compromises robustness. To address this challenge, we introduce BlindFormer, a novel contrastive attention learning framework that redefines saliency by explicitly incorporating features typically neglected by the model. The proposed Attentional Blindspot Mining (ABM) suppresses highly attended regions during training, thereby guiding the model to explore its own blind spots. This redirection of attention expands the model’s perceptual field and uncovers richer geometric cues. To consolidate these overlooked features, BlindFormer employs Blindspot-Aware Joint Optimization (BJO), a joint learning objective that integrates blindspot feature alignment with the original pretext task. BJO enhances feature discrimination while preserving performance on the primary task, leading to more robust and generalizable representations. We validate BlindFormer on several challenging benchmarks and demonstrate consistent performance gains across multiple Transformer backbones. Notably, it improves Point-MAE by +13.4\% and PointGPT-S by +6.3\% on OBJ-BG under Gaussian noise. These results highlight the importance of mitigating attentional biases in 3D representation learning, revealing BlindFormer’s superior ability to handle perturbations and improve feature discrimination.

Reinforcement Learning · Batch Offline

Lucas Maystre, Gabriel Barello, Tudor Berariu, Cambray, Rares Dolga, Alvaro Ortega Gonzalez, Andrei Nica, David Barber

We address the problem of incremental sequence classification, where predictions are updated as new elements in the sequence are revealed. Drawing on temporal-difference learning from reinforcement learning, we identify a temporal-consistency condition that successive predictions should satisfy. We leverage this condition to develop a novel loss function for training incremental sequence classifiers. Through a concrete example, we demonstrate that optimizing this loss can offer substantial gains in data efficiency. We apply our method to text classification tasks and show that it improves predictive accuracy over competing approaches on several benchmark datasets. We further evaluate our approach on the task of verifying large language model generations for correctness in grade-school math problems. Our results show that models trained with our method are better able to distinguish promising generations from unpromising ones after observing only a few tokens.

Theory · Learning Theory

Farnam Mansouri, Shai Ben-David

PU (Positive Unlabeled) learning is a variant of supervised classification learning in which the only labels revealed to the learner are of positively labeled instances. PU learning arises in many real-world applications. Most existing work relies on the simplifying assumption that the positively labeled training data is drawn from the restriction of the data generating distribution to positively labeled instances and/or that the proportion of positively labeled points (a.k.a. the class prior) is known apriori to the learner. This paper provides a theoretical analysis of the statistical complexity of PU learning under a wider range of setups. Unlike most prior work, our study does not assume that the class prior is known to the learner. We prove upper and lower bounds on the required sample sizes (of both the positively labeled and the unlabeled samples).

Applications · Neuroscience, Cognitive Science

Kyra Kadhim, Jonas Beck, Ziwei Huang, Jakob H Macke, Fred Rieke, Thomas Euler, Michael Deistler, Philipp Berens

Visual processing starts in the outer retina where photoreceptors transform light into electrochemical signals. These signals are modulated by inhibition from horizontal cells and sent to the inner retina via excitatory bipolar cells. The outer retina is thought to play an important role in contrast invariant coding of visual information, but how the different cell types implement this computation together remains incompletely understood. To understand the role of each cell type, we developed a fully-differentiable biophysical model of a circular patch of mouse outer retina. The model includes 200 cone photoreceptors with a realistic phototransduction cascade and ribbon synapses as well as horizontal and bipolar cells, all with cell-type specific ion channels. Going beyond decades of work constraining biophysical models of neurons only by experimental data, we used a dual approach, constraining some parameters of the model with available measurements and others by a visual task: (1) We fit the parameters of the cone models to whole cell patch-clamp measurements of photocurrents and two-photon glutamate imaging measurements of synaptic release. (2) We then trained the spatiotemporal outer retina model with photoreceptors and the other cell types to perform a visual classification task with varying contrast and luminance levels. We found that our outer retina model could learn to solve the classification task despite contrast and luminance variance in the stimuli. Testing different cell type compositions and connectivity patterns, we found that feedback from horizontal cells did not further improve task performance beyond that of excitatory photoreceptors and bipolar cells. This is surprising given that horizontal cells are positioned to mediate communication across cones and that they add to the model's number of trainable parameters. Finally, we found that our model generalized better to out of distribution contrast levels than a linear classifier. Our work shows how the nonlinearities found in the outer retina can accomplish contrast invariant classification and teases apart the contributions of different cell types.

Social Aspects · Trustworthy Machine Learning

Xuyang Zhong, Haochen Luo, Chen Liu

Existing machine unlearning (MU) approaches exhibit significant sensitivity to hyperparameters, requiring meticulous tuning that limits practical deployment. In this work, we first empirically demonstrate the instability and suboptimal performance of existing popular MU methods when deployed in different scenarios. To address this issue, we propose Dual Optimizer (DualOptim), which incorporates adaptive learning rate and decoupled momentum factors. Empirical and theoretical evidence demonstrates that DualOptim contributes to effective and stable unlearning. Through extensive experiments, we show that DualOptim can significantly boost MU efficacy and stability across diverse tasks, including image classification, image generation, and large language models, making it a versatile approach to empower existing MU algorithms.

Applications · Time Series

Weiyang Zhang, Xinyang Chen, Xiucheng Li, Kehai Chen, Weili Guan, Liqiang Nie

With the increasing number of time series pre-trained models, designing transferability evaluation metrics for time series has become an urgent problem to address. While transferability evaluation has been extensively studied in computer vision, we aim to address a critical gap by developing tailored metrics for time series analysis. In this paper, we introduce TEMPLATE, a transferability estimation framework specifically tailored for versatile time series analysis, comprising three complementary metrics: (1) Dependency Learning Score quantifies a model’s capacity to capture temporal dependencies. (2) Pattern Learning Score evaluates the representation quality in extracting discriminative temporal patterns. (3) Task Adaptation Score assesses cross-task generalization capability, enabling versatile time series analysis. TEMPLATE presents a versatile framework compatible with both classification and regression paradigms. Through comprehensive benchmarking across five distinct downstream tasks, our method demonstrates superior capability in identifying optimal pre-trained models from heterogeneous model pools for transfer learning. Compared to the state-of-the-art method ETran, our approach improves the weighted Kendall's $\tau_w$ across five downstream tasks by 35\%. The code is available at https://anonymous.4open.science/r/TEMPLATE-A0AA/.