EXCODER: EXplainable Classification Of DiscretE time series Representations

Deep learning has significantly improved time series classification, yet the lack of explainability in these models remains a major challenge. While Explainable AI (XAI) techniques aim to make model decisions more transparent, their effectiveness is often hindered by the high dimensionality and noise present in raw time series data. In this work, we investigate whether transforming time series into discrete latent representations-using methods such as Vector Quantized Variational Autoencoders (VQ-VAE) and Discrete Variational Autoencoders (DVAE)-not only preserves but enhances explainability by reducing redundancy and focusing on the most informative patterns. We show that applying XAI methods to these compressed representations leads to concise and structured explanations that maintain faithfulness without sacrificing classification performance. Additionally, we propose Similar Subsequence Accuracy (SSA), a novel metric that quantitatively assesses the alignment between XAI-identified salient subsequences and the label distribution in the training data. SSA provides a systematic way to validate whether the features highlighted by XAI methods are truly representative of the learned classification patterns. Our findings demonstrate that discrete latent representations not only retain the essential characteristics needed for classification but also offer a pathway to more compact, interpretable, and computationally efficient explanations in time series analysis.

Ill-Conditioning in Dictionary-Based Dynamic-Equation Learning: A Systems Biology Case Study

Data-driven discovery of governing equations from time-series data provides a powerful framework for understanding complex biological systems. Library-based approaches that use sparse regression over candidate functions have shown considerable promise, but they face a critical challenge when candidate functions become strongly correlated: numerical ill-conditioning. Poor or restricted sampling, together with particular choices of candidate libraries, can produce strong multicollinearity and numerical instability. In such cases, measurement noise may lead to widely different recovered models, obscuring the true underlying dynamics and hindering accurate system identification. Although sparse regularization promotes parsimonious solutions and can partially mitigate conditioning issues, strong correlations may persist, regularization may bias the recovered models, and the regression problem may remain highly sensitive to small perturbations in the data. We present a systematic analysis of how ill-conditioning affects sparse identification of biological dynamics using benchmark models from systems biology. We show that combinations involving as few as two or three terms can already exhibit strong multicollinearity and extremely large condition numbers. We further show that orthogonal polynomial bases do not consistently resolve ill-conditioning and can perform worse than monomial libraries when the data distribution deviates from the weight function associated with the orthogonal basis. Finally, we demonstrate that when data are sampled from distributions aligned with the appropriate weight functions corresponding to the orthogonal basis, numerical conditioning improves, and orthogonal polynomial bases can yield improved model recovery accuracy across two baseline models.

GNNs for Time Series Anomaly Detection: An Open-Source Framework and a Critical Evaluation

There is growing interest in applying graph-based methods to Time Series Anomaly Detection (TSAD), particularly Graph Neural Networks (GNNs), as they naturally model dependencies among multivariate signals. GNNs are typically used as backbones in score-based TSAD pipelines, where anomalies are identified through reconstruction or prediction errors followed by thresholding. However, and despite promising results, the field still lacks standardized frameworks for evaluation and suffers from persistent issues with metric design and interpretation. We thus present an open-source framework for TSAD using GNNs, designed to support reproducible experimentation across datasets, graph structures, and evaluation strategies. Built with flexibility and extensibility in mind, the framework facilitates systematic comparisons between TSAD models and enables in-depth analysis of performance and interpretability. Using this tool, we evaluate several GNN-based architectures alongside baseline models across two real-world datasets with contrasting structural characteristics. Our results show that GNNs not only improve detection performance but also offer significant gains in interpretability, an especially valuable feature for practical diagnosis. We also find that attention-based GNNs offer robustness when graph structure is uncertain or inferred. In addition, we reflect on common evaluation practices in TSAD, showing how certain metrics and thresholding strategies can obscure meaningful comparisons. Overall, this work contributes both practical tools and critical insights to advance the development and evaluation of graph-based TSAD systems.

TokEye: Fast Signal Extraction for Fluctuating Time Series via Offline Self-Supervised Learning From Fusion Diagnostics to Bioacoustics

Next-generation fusion facilities like ITER face a "data deluge," generating petabytes of multi-diagnostic signals daily that challenge manual analysis. We present a "signals-first" self-supervised framework for the automated extraction of coherent and transient modes from high-noise time-frequency data across a variety of sensors. We also develop a general-purpose method and tool for extracting coherent, quasi-coherent, and transient modes for fluctuation measurements in tokamaks by employing non-linear optimal techniques in multichannel signal processing with a fast neural network surrogate on fast magnetics, electron cyclotron emission, CO2 interferometers, and beam emission spectroscopy measurements from DIII-D. Results are tested on data from DIII-D, TJ-II, and non-fusion spectrograms. With an inference latency of 0.5 seconds, this framework enables real-time mode identification and large-scale automated database generation for advanced plasma control. Repository is in https://github.com/PlasmaControl/TokEye.

Pupillometry and Brain Dynamics for Cognitive Load in Working Memory

Cognitive load, the mental effort required during working memory, is central to neuroscience, psychology, and human-computer interaction. Accurate assessment is vital for adaptive learning, clinical monitoring, and brain-computer interfaces. Physiological signals such as pupillometry and electroencephalography are established biomarkers of cognitive load, but their comparative utility and practical integration as lightweight, wearable monitoring solutions remain underexplored. EEG provides high temporal resolution of neural activity. Although non-invasive, it is technologically demanding and limited in wearability and cost due to its resource-intensive nature, whereas pupillometry is non-invasive, portable, and scalable. Existing studies often rely on deep learning models with limited interpretability and substantial computational expense. This study integrates feature-based and model-driven approaches to advance time-series analysis. Using the OpenNeuro 'Digit Span Task' dataset, this study investigates cognitive load classification from EEG and pupillometry. Feature-based approaches using Catch-22 features and classical machine learning models outperform deep learning in both binary and multiclass tasks. The findings demonstrate that pupillometry alone can compete with EEG, serving as a portable and practical proxy for real-world applications. These results challenge the assumption that EEG is necessary for load detection, showing that pupil dynamics combined with interpretable models and SHAP based feature analysis provide physiologically meaningful insights. This work supports the development of wearable, affordable cognitive monitoring systems for neuropsychiatry, education, and healthcare.

FaultXformer: A Transformer-Encoder Based Fault Classification and Location Identification model in PMU-Integrated Active Electrical Distribution System

Accurate fault detection and localization in electrical distribution systems is crucial, especially with the increasing integration of distributed energy resources (DERs), which inject greater variability and complexity into grid operations. In this study, FaultXformer is proposed, a Transformer encoder-based architecture developed for automatic fault analysis using real-time current data obtained from phasor measurement unit (PMU). The approach utilizes time-series current data to initially extract rich temporal information in stage 1, which is crucial for identifying the fault type and precisely determining its location across multiple nodes. In Stage 2, these extracted features are processed to differentiate among distinct fault types and identify the respective fault location within the distribution system. Thus, this dual-stage transformer encoder pipeline enables high-fidelity representation learning, considerably boosting the performance of the work. The model was validated on a dataset generated from the IEEE 13-node test feeder, simulated with 20 separate fault locations and several DER integration scenarios, utilizing current measurements from four strategically located PMUs. To demonstrate robust performance evaluation, stratified 10-fold cross-validation is performed. FaultXformer achieved average accuracies of 98.76% in fault type classification and 98.92% in fault location identification across cross-validation, consistently surpassing conventional deep learning baselines convolutional neural network (CNN), recurrent neural network (RNN). long short-term memory (LSTM) by 1.70%, 34.95%, and 2.04% in classification accuracy and by 10.82%, 40.89%, and 6.27% in location accuracy, respectively. These results demonstrate the efficacy of the proposed model with significant DER penetration.

RhythmBERT: A Self-Supervised Language Model Based on Latent Representations of ECG Waveforms for Heart Disease Detection

Electrocardiogram (ECG) analysis is crucial for diagnosing heart disease, but most self-supervised learning methods treat ECG as a generic time series, overlooking physiologic semantics and rhythm-level structure. Existing contrastive methods utilize augmentations that distort morphology, whereas generative approaches employ fixed-window segmentation, which misaligns cardiac cycles. To address these limitations, we propose RhythmBERT, a generative ECG language model that considers ECG as a language paradigm by encoding P, QRS, and T segments into symbolic tokens via autoencoder-based latent representations. These discrete tokens capture rhythm semantics, while complementary continuous embeddings retain fine-grained morphology, enabling a unified view of waveform structure and rhythm. RhythmBERT is pretrained on approximately 800,000 unlabeled ECG recordings with a masked prediction objective, allowing it to learn contextual representations in a label-efficient manner. Evaluations show that despite using only a single lead, RhythmBERT achieves comparable or superior performance to strong 12-lead baselines. This generalization extends from prevalent conditions such as atrial fibrillation to clinically challenging cases such as subtle ST-T abnormalities and myocardial infarction. Our results suggest that considering ECG as structured language offers a scalable and physiologically aligned pathway for advancing cardiac analysis.

Be Wary of Your Time Series Preprocessing

Normalization and scaling are fundamental preprocessing steps in time series modeling, yet their role in Transformer-based models remains underexplored from a theoretical perspective. In this work, we present the first formal analysis of how different normalization strategies, specifically instance-based and global scaling, impact the expressivity of Transformer-based architectures for time series representation learning. We propose a novel expressivity framework tailored to time series, which quantifies a model's ability to distinguish between similar and dissimilar inputs in the representation space. Using this framework, we derive theoretical bounds for two widely used normalization methods: Standard and Min-Max scaling. Our analysis reveals that the choice of normalization strategy can significantly influence the model's representational capacity, depending on the task and data characteristics. We complement our theory with empirical validation on classification and forecasting benchmarks using multiple Transformer-based models. Our results show that no single normalization method consistently outperforms others, and in some cases, omitting normalization entirely leads to superior performance. These findings highlight the critical role of preprocessing in time series learning and motivate the need for more principled normalization strategies tailored to specific tasks and datasets.

TSAQA: Time Series Analysis Question And Answering Benchmark

Time series data are integral to critical applications across domains such as finance, healthcare, transportation, and environmental science. While recent work has begun to explore multi-task time series question answering (QA), current benchmarks remain limited to forecasting and anomaly detection tasks. We introduce TSAQA, a novel unified benchmark designed to broaden task coverage and evaluate diverse temporal analysis capabilities. TSAQA integrates six diverse tasks under a single framework ranging from conventional analysis, including anomaly detection and classification, to advanced analysis, such as characterization, comparison, data transformation, and temporal relationship analysis. Spanning 210k samples across 13 domains, the dataset employs diverse formats, including true-or-false (TF), multiple-choice (MC), and a novel puzzling (PZ), to comprehensively assess time series analysis. Zero-shot evaluation demonstrates that these tasks are challenging for current Large Language Models (LLMs): the best-performing commercial LLM, Gemini-2.5-Flash, achieves an average score of only 65.08. Although instruction tuning boosts open-source performance: the best-performing open-source model, LLaMA-3.1-8B, shows significant room for improvement, highlighting the complexity of temporal analysis for LLMs.

A Data-Driven Approach to Support Clinical Renal Replacement Therapy

This study investigates a data-driven machine learning approach to predict membrane fouling in critically ill patients undergoing Continuous Renal Replacement Therapy (CRRT). Using time-series data from an ICU, 16 clinically selected features were identified to train predictive models. To ensure interpretability and enable reliable counterfactual analysis, the researchers adopted a tabular data approach rather than modeling temporal dependencies directly. Given the imbalance between fouling and non-fouling cases, the ADASYN oversampling technique was applied to improve minority class representation. Random Forest, XGBoost, and LightGBM models were tested, achieving balanced performance with 77.6% sensitivity and 96.3% specificity at a 10% rebalancing rate. Results remained robust across different forecasting horizons. Notably, the tabular approach outperformed LSTM recurrent neural networks, suggesting that explicit temporal modeling was not necessary for strong predictive performance. Feature selection further reduced the model to five key variables, improving simplicity and interpretability with minimal loss of accuracy. A Shapley value-based counterfactual analysis was applied to the best-performing model, successfully identifying minimal input changes capable of reversing fouling predictions. Overall, the findings support the viability of interpretable machine learning models for predicting membrane fouling during CRRT. The integration of prediction and counterfactual analysis offers practical clinical value, potentially guiding therapeutic adjustments to reduce fouling risk and improve patient management.