Cephalonauts One is a whole-brain 3 Tesla (3T) functional magnetic resonance imaging (fMRI) dataset recorded while subjects listened to audio podcasts. Three healthy subjects underwent multiple scanning sessions, each consisting of five 15-minute runs, while listening to podcasts in their native language. With 30 hours of fMRI data per subject, the current release is the deepest available fMRI dataset using naturalistic speech stimuli. The dataset pairs brain activity with the corresponding podcast audio, transcript annotations, and derived stimulus embeddings. Furthermore, we introduce a brain decoding benchmark formulated as audio segment retrieval: given fMRI activity from a held-out session, the decoder must identify the corresponding time-aligned podcast audio segment among candidate segments. We provide standardized splits, evaluation metrics, and baseline decoders for this task. Finally, a scaling analysis shows that decoding performance improves continuously with the amount of training data per subject.
https://arxiv.org/abs/2610.03558
Video saliency prediction is inherently harder to model than static image saliency due to the additional temporal dimension. Video saliency benchmarks rest on the premise that predicting gaze on video requires utilizing temporal activity distributed across frames. Prior work has challenged this, showing that static baselines recover a significant fraction of the explainable gaze information on LEDOV, a popular video saliency dataset, and that video saliency models fail in the same places as this static baseline. We verify that this diagnosis still stands: under a more capable gold standard than the original analysis, and an updated panel of recent architectures, the strongest temporal architecture in the panel still does not substantially improve over a fine-tuned static baseline. However, it remains unclear whether the marginal gain reflects limitations of current temporal architectures or a lack of temporal patterns in the benchmark itself. We introduce SalTempto, a video saliency benchmark with greater dynamism: 224 clips of highly dynamic content, sourced from the HACS-Segments dataset so that each clip contains an event together with its lead-up and aftermath, with gaze recordings from up to 16 subjects and a training split for adapting pretrained models. On SalTempto, the static baseline recovers only about 13\% of the headroom above the centerbias, against more than half on LEDOV. A fine-tuned temporal architecture shows a substantial gain in performance over the static baseline, indicating that it does capture meaningfully more temporal information, which LEDOV fails to measure. Yet, even this SoTA model still leaves nearly half of SalTempto's headroom unexplained, indicating room for improvement in video saliency modelling. Examination of SalTempto also lets us describe human tendencies that models miss. SalTempto link: this https URL.
https://arxiv.org/abs/2610.03276
Discovering broadly neutralizing antibodies (bnAbs) from human natural immune repertoires remains a fundamental challenge in immunology, hindered by: the extreme rarity of bnAb, incomplete understanding of their cellular origins across pathogens, and the inability of existing computational tools to generalize across emerging viral threats. Here we present ImmuneAgent, a closed-loop AI system that integrates multimodal reasoning with continual meta-learning and wet-lab feedback to overcome these barriers. Applied to screen the natural BCR repertoires from vaccinated or infected cohorts, the system achieves a ~55% neutralization antibody discovery rate (60 of 110 cloned candidates) and a ~11% bnAb yield (12 of 110), substantially outperforming a state-of-the-art sequence-based neutralization predictor or cofolding models evaluated at the same cloning budget. Five ImmuneAgent-discovered antibodies conferred 100% in vivo protection against lethal influenza challenge, comparable to the clinical-stage therapeutic MEDI8852. The system recovered the cellular and structural determinants of bnAb activity and identified FCRL5+CD27+ atypical memory B cells as a conserved bnAb reservoir and hydrophobic interface enrichment as a cross-viral structural signature, which generalized to unseen antigens, discovering human metapneumovirus (hMPV) cross-neutralizing and human papillomavirus (HPV)-neutralizing antibodies without antigen-specific sorting. These results validate that ImmuneAgent is a generalizable framework for rapid therapeutic antibody discovery against emerging viral threats.
https://arxiv.org/abs/2610.03160
Quantifying conversational dynamics requires reliable identification of interactional units and their temporal boundaries, but speech activity alone does not distinguish conversational turns from listener feedback or within-turn pauses. We present an automated pipeline for extracting turns and backchannels from separate-channel recordings of spontaneous dyadic conversation, designed to provide a consistent first-pass annotation for subsequent human review. The pipeline combines voice activity detection, channel-energy filtering, temporal merging, automatic speech recognition, and context-based post-processing. We evaluated the pipeline on 99 ten-minute Danish conversations from 33 dyads using segment-level detection reliability and temporal boundary error. Conversations were recorded under both normal and asymmetric listening conditions. In the latter, speech-shaped noise was delivered to one participant through bone-conduction headphones. Overall detection reliability was F1=0.621, with similar performance for turns F1=0.624 and backchannels F1=0.618. For successfully matched segments, median absolute onset and offset errors were 0.150 and 0.160s for turns and 0.130 and 0.180s for backchannels, respectively. Mean errors were substantially larger for turn boundaries, indicating a smaller number of large boundary mismatches. Performance did not differ significantly across the two experimental listening conditions. In a four-conversation case study, pipeline-human agreement was lower and more variable than human inter-annotator agreement and varied across parameter settings. These results support the pipeline as an automated first pass within a semi-automated annotation workflow, providing a consistent basis for more standardised and reproducible annotation of conversational dynamics.
https://arxiv.org/abs/2610.03078
Gene set analysis is a cornerstone of functional genomics, yet it remains labor-intensive and heavily dependent on manual curation and expert biological interpretation. While Large Language Models (LLMs) have emerged as powerful tools for genomic reasoning and annotation, most existing approaches rely on symbolic gene names and fail to capture domain-specific biological structure, particularly protein sequence information that governs molecular activity, interactions, and downstream gene function. In this work, we propose SoftGene, a novel framework for LLM-based gene set annotation that leverages the hierarchical structure of gene sets. First, we use a hierarchical attention-based encoder built on ESM, a protein language model, to represent each gene set using protein-level amino acid sequence information. Second, we construct a hybrid prompting scheme that combines soft prompts derived from gene set embeddings with hard prompts containing auxiliary context generated by an LLM, and feed the resulting prompt into a local LLM for annotation. We evaluate our framework on two benchmark datasets: Gene Ontology (GO) and the Molecular Signatures Database (MSigDB). Our results show that integrating protein-sequence representations with textual context improves gene set annotation overall, while per-domain analyses reveal that the contribution of protein embeddings varies across biological domains.
https://arxiv.org/abs/2610.03029
Egocentric videos capture how people carry out everyday activities, yet testing an agent requires evaluating the consequences of actions it chooses itself. We introduce Ego2World, a benchmark that turns annotated cooking activities into executable planning environments under partial observation. Its compiler links source steps and objects to symbolic action rules, persistent world states, and explicit task conditions, so researchers can execute an agent's proposed actions and check their outcomes. World state and agent belief are maintained separately, enabling controlled studies of planning and information reuse across continuing tasks. Evaluating six planners on 105 tasks shows that accepted operations often leave task goals unmet. Execution traces and condition checks distinguish interrupted runs, partial attainment, and completed execution without goal attainment. In a separate paired Qwen-Plus study, persistent belief improves action validity by 4.15 percentage points and reduces visual-query attempts by 90.27%, with higher token use and no detected completion gain. Ego2World provides a reusable testbed for tracing how planning and memory choices affect execution, observation demand, and task attainment, connecting recorded human activity to the development and evaluation of interactive agents.
https://arxiv.org/abs/2610.02715
Effective wildfire monitoring requires relating visual evidence to physical fire dynamics, yet real videos with synchronized physical annotations are scarce and high-fidelity 3D simulation is costly. We present a simulation-grounded vision-language model (VLM) framework that automatically converts 2D wildfire simulations into labeled video episodes. A fixed Blender mapping produces low-detail 3D proxies aligned with simulator terrain, fuel layout, fire activity, and wind cues; controllable video generation supplies richer appearance. The proxies are intermediate representations rather than finely rendered final scenes. Generated videos and simulator labels form reusable multimodal memory for a training-free multi-agent VLM system that retrieves reference episodes, reconciles visual and memory-based predictions, and produces structured wildfire reports. On held-out generated episodes, video memory achieves 51.5% exact four-tag accuracy, compared with 22.6% for direct VLM querying and 16-17% for text-only memory; the complete system achieves 77.3% accuracy on six simulator-derived report fields. Component ablations, cross-generator tests, and three real-UAV evaluations assess retrieval, reporting, generator changes, and observable monitoring tasks. The framework connects automatic simulation-to-proxy conversion with memory-based VLM reasoning under scarce real-world physical annotations.
https://arxiv.org/abs/2610.02451
In Recirculating Aquaculture Systems (RAS), precision feeding is critical for minimizing costs and improving fish welfare. However, existing methods lack cognitive alignment between fish behaviors and management knowledge, impeding translation into executable, interpretable feeding decisions. To address this, we propose THPL, a generative feeding decision framework tailored for rainbow trout (Oncorhynchus mykiss) in RAS. First, Fishsort extracts trajectories to establish an Activity Coefficient (AC) quantifying feeding intensity. Second, a Hierarchical Behavior Encoder (HBE) models individual temporal progression and collective dynamics using Temporal and Set Transformers, transforming trajectory tensors into dual-evidence representations of explicit physical and implicit soft tokens. Finally, these tokens are integrated with environmental parameters, metadata, and expert rules to fine-tune an LLM via LoRA, followed by counterfactual multimodal Direct Preference Optimization (mDPO) to reinforce causal reasoning. Results show that AC exhibits a statistically significant monotonic positive correlation with expert-annotated feeding intensity (Spearman $\rho = 0.925$, $p < 0.001$). Ablations indicate that decision accuracy improves from 33.33% (text-only baseline) to 93.33% with dual-evidence tokens, confirming that continuous spatiotemporal tokens provide necessary physical grounding for LLMs. Compared with standard LoRA, counterfactual mDPO elevates decision accuracy from 93.33% to 96.67%, advances METEOR from 58.10% to 85.30%, reduces Self-BLEU-2 from 58.79% to 52.88%, and increases Distinct-3 from 6.68% to 7.81%, suppressing templating and actuation biases while reinforcing causal consistency and operational safety. Overall, by integrating continuous kinematics with LLM reasoning, this study provides a novel decision support paradigm for precision aquaculture.
https://arxiv.org/abs/2610.02378
Human activity recognition (HAR) is increasingly important for healthcare, well-being, and daily monitoring ap- plications, for which detecting alimentary activities such as eating and drinking can provide actionable insight into dietary habits and chronic disease management. HAR systems, however, often underperform on subtle and underrepresented classes, limiting their utility in real-world dietary monitoring. This work builds upon CABiGRU, a convolutional architecture with Bidirectional GRU layers, multi-head attention, and residual connections, designed to capture discriminative temporal patterns from smart- watch accelerometer, gyroscope, and magnetometer data. To improve CaBiGRU's generalization and reduce underfitting in the minority class, we leverage synthetic sensor data windows using a diffusion model and adopt a two-stage training strategy: pre-training CABiGRU on synthetic data, followed by fine-tuning on the real-world data. On the DEO (drinking/eating/other) dataset, the proposed pipeline achieves a balanced accuracy of 90.6%, improving over a strong supervised baseline and showing the benefits of diffusion-based synthetic pre-training for recognizing alimentary activities and representing a step forward dealing with unbalanced classes. These results suggest that combining diffusion-generated data with targeted fine-tuning enhances robust recognition of dietary behaviors, supporting more reliable deployment in healthcare and nutrition-monitoring settings.
https://arxiv.org/abs/2610.02292
Large Language Models (LLMs) have demonstrated remarkable fluency across many tasks but remain limited by their static, parameter bound knowledge and their susceptibility to hallucinating information. Retrieval Augmented Generation (RAG) addresses these issues by incorporating external retrieval into the generation process, grounding model outputs in verifiable and up to date sources. While prior surveys primarily focus on core RAG architectures and standard pipelines, recent research explores broader challenges and capabilities that extend beyond these foundational designs. This survey provides a consolidated and structured examination of contemporary RAG developments, organizing the field into a four axis taxonomy: improving retrieval efficiency, strengthening robustness and security, supporting user driven and interactive workflows, and enabling multi step or complex reasoning. We formalize key components of the RAG framework and review methods spanning dense and sparse retrieval, fusion strategies, embedding optimizations, and reinforcement learning based retrieval policies, highlighting how these advances influence practical deployment and system design. We also synthesize evaluation practices, domain specific applications, and architectural variants such as Naive, Advanced, and Modular RAG. Finally, we outline persistent challenges related to retrieval quality, reliability, domain adaptation, scalability, and explainability, and identify opportunities for building RAG systems that are more reliable, adaptable, and transparent.
https://arxiv.org/abs/2610.01936
Mitotic counting is an important component of tumour grading, diagnosis and prognostic assessment across several tumour types, but manual assessment is time-consuming and subject to inter-pathologist variability. To help address these challenges, we developed MitPro, an AI tool designed to improve consistency and efficiency by directing pathologists towards regions with the highest predicted mitotic activity and highlighting mitotic figures for review, while retaining pathologist control over region selection and the final count. We evaluated its effect on the reproducibility and efficiency of mitotic counting in a retrospective, non-interventional, paired reader study comprising 385 whole-slide images from 3 centres in 3 countries and 7 tumour types using 3 different scanners. 13 pathologists participated, with each slide assessed independently by 3 pathologists without AI assistance and again with AI assistance after a minimum 2 week washout period. Across all slides, AI-assisted counting increased the intraclass correlation coefficient from 0.589 to 0.949. Mean pathologist-level median assessment time decreased from 286.4 to 127.8 seconds, corresponding to an average saving of 151.8 seconds per assessment. Improvements in agreement and efficiency were also observed in supporting analyses using HALO AP and Sectra image management systems and in 2 additional tumour types outside the main study population. AI-assisted assessment was associated with a subtle shift towards higher mitotic counts and scores, consistent with identification of more active mitotic hotspots and fewer missed mitotic figures. The frequency of score change between unassisted and AI-assisted assessment was comparable with inter-pathologist variation during routine counting. These findings support the use of MitPro as an assistive tool for more consistent and efficient mitotic assessment in routine practice.
https://arxiv.org/abs/2610.01813
Action chunking improves the performance of policies learned by behavioural cloning, and several mechanisms have been proposed to explain why, including temporal consistency, horizon reduction, representation learning, and reduced error compounding. We instead study what happens to an action error once it enters the system. At each state, we inject a small action error and measure how fast it grows or shrinks under two execution regimes: open-loop, where the rest of the chunk is replayed without replanning, and closed-loop, where the policy replans after the perturbation. The fitted rate labels each state as contracting, expanding, or unresolved. Across twelve manipulation tasks from three benchmark suites, we find that confidently stable states are rare, while error amplification is common among states whose propagation rate can be resolved. We further find that the measured propagation rate depends strongly on the fitting horizon: amplification is typically front-loaded, so short windows can overestimate longer-horizon propagation. Finally, we train predictors on these labels and find that a state's open-loop regime can be recovered from camera frames and proprioception alone, while its closed-loop propagation is only partially recoverable because it also depends on how the policy acts after the perturbation. These results suggest that error-compounding arguments alone do not provide a complete account of action chunking: neither passive open-loop dynamics nor policy replanning consistently contracts an injected error, and replanning rarely turns open-loop amplification into confident contraction. This suggests that closed-loop reactivity should be trained explicitly, using perturbation- and tree-coverage-oriented training to expose policies to deviations they must recover from, rather than expected to emerge reliably from standard imitation learning.
https://arxiv.org/abs/2610.01626
The environmental impact of deep learning has attracted increasing attention over the past decade. Existing studies mainly focus on the energy and carbon emissions of model training and inference, while the whole development phase is often overlooked. Yet, architecture prototyping and intensive experiments are conducted during this stage, which is highly energy-demanding. In this article, we propose a methodology to estimate these costs, based on activity logs from the Grid5000 shared computing platform used by the LORIA laboratory. As a case-study, we focus on audio projects developed in the Multispeech research team. We evaluate the overall energy cost of four projects, and we compare them to those of training the reported models. Our results show that the energy required for the development phase is 3 to 256 times greater than that required to train the best-performing model alone. These results advocate for a more systematic reporting of energy consumption across the entire life cycle of deep learning-based audio projects.
https://arxiv.org/abs/2610.01619
Generative video world models can now synthesize open-ended environments that agents can navigate and interact with in simple ways. Yet open-ended generation does not imply full interaction: as a generated world expands, newly created content through navigation should expand what the agent can act upon, and as the agent changes the world, those changes should become persistent parts of the environment rather than transient visual effects. We characterize these two requirements as Open-World Interactivity, where newly generated or encountered entities are incorporated into the actionable world, and Persistent State, where interaction outcomes are committed to the world state and continue to influence subsequent observations and interactions. We present Oneira, an interactive video world model that closes the loop between generation and interaction through an explicit, extensible world state managed by a coding agent. Given the current observation and an action or high-level goal, the agent reads the world state, grounds the relevant entities, plans the interaction, and writes its outcome back into a world state table. When exploration reveals new objects, the agent incorporates them from generated observations, allowing the interaction space to expand with the generated world. Meanwhile, previously induced state changes are carried across video segments, making the consequences of interaction persistent parts of subsequent world evolution. The updated world state is rendered along the camera action trajectory into a coarse conditioning video, from which a video generator fills in the appearance, motion, and interaction details not represented in the state. Experiments show that Oneira enables direct and consistent interaction with newly generated objects, while preserving the effects of prior interactions over long horizons. Project page: this https URL
https://arxiv.org/abs/2610.01614
Spiking Neural Networks (SNNs) enable event-driven computation through biologically inspired dynamics at the neuronal scale, while Mixture-of-Experts (MoE) perform conditional computation through expert selection at the model scale. Integrating their strengths offers potential for flexible neural architectures. A key challenge, however, lies in designing an expert selection mechanism based on spiking activity. To address this, we introduce a spike-based k-WTA Router inspired by competition-inhibition observed in the hippocampal CA1 region. The router incorporates lateral inhibition and refractory period to select Top-K experts according to discrete spike counts. Building on this, we present SpikeMoE, a framework that integrates neuronal-scale spiking dynamics with model-scale expert selection. To address incomplete multisensory inputs in multimodal tasks, we further equip SpikeMoE with a two-stage missing-modality modeling module that combines empirical prototypes from an observed-modality pool with modality-specific learnable embeddings to construct missing-modality representations. Experiments on vision, language, and multimodal benchmarks demonstrate that SpikeMoE achieves state-of-the-art performance among the SNN baselines, matches or exceeds the performance of ANN counterparts, and maintains robustness across diverse missing-modality conditions. These results demonstrate a favorable trade-off between performance and energy efficiency, validating the integration of spiking dynamics with sparse expert computation and highlighting SpikeMoE as a promising approach to energy-efficient brain-inspired computing.
https://arxiv.org/abs/2610.01418
Audio decisions often depend on evidence that a transcript does not preserve, while their probability estimates can depend on how answer options are ordered. AudioJev maps a waveform, question and supplied alternatives directly to a candidate distribution through one shared full-parameter model. We define order calibration as preserving an answer's probability under meaning-preserving option permutations. Random-derangement SKL training pairs each question with a reordered view in which every alternative changes position, supervises both answers, and aligns the two distributions before applying a symmetric KL penalty. Inference retains a single candidate-scoring forward, with no calibration head or order ensemble. Across three training seeds, AudioJev reaches 68.88%/55.33% mean accuracy on complete MMAU/MMAR and reduces random-order SKL by 43.8%/60.5% relative to the single-view removal ablation. The same model handles intent, environmental sound, note properties, speech activity and conversational transitions. Paired removal ablations and multi-order evaluation measure predictive accuracy and probability stability together, establishing a direct audio interface whose calibration objective acts on candidate meaning rather than presentation position. Inference code and model weights are available at this https URL and this https URL.
https://arxiv.org/abs/2610.01293
Recent joint audio-video generative models can synthesize realistic videos with synchronized sound, but typically generate audio as a single mixed track. This limits source-level control and differs from practical audiovisual workflows, where speech, music, sound effects, and ambient sounds are represented as separate editable tracks. We introduce Soundwich, a training-free framework that transforms a frozen joint audio-video flow-matching model into a generator of multiple synchronized, independently editable audio stems coupled to a shared video. Soundwich generates separate audio stems with explicit control over their temporal activity. To keep separately generated sounds coherent, we introduce a shared scene representation that communicates global audiovisual context across stems while preserving their source-level separation. We further route cross-modal interactions between each audio stem and its corresponding visual source, improving audiovisual consistency. The resulting stems remain synchronized with the video and can be independently retimed, muted, replaced, or remixed. Experiments and human evaluations show improved temporal control, source separation, and naturalness, while enabling flexible source-level editing within coherent audiovisual generation. Code is available at this https URL.
https://arxiv.org/abs/2610.00691
Photospheric vector magnetic fields are foundational to modeling, understanding, and forecasting solar activity. These data are usually produced by inverting and disambiguating the full Stokes vector at multiple passbands, which is demanding. Here, we investigate how well we can estimate photospheric vector magnetograms from UV/EUV filtergrams. This problem is challenging and intrinsically ambiguous without polarization information, as the mapping from UV/EUV intensity to the magnetic field is indirect and ill-posed. We introduce MAGiDiff, a machine-learning-based method that uses denoising diffusion models to estimate vector magnetograms from UV/EUV filtergrams. As input, MAGiDiff takes a stack of filtergrams from the Solar Dynamics Observatory (SDO) / Atmospheric Imaging Assembly (AIA); as output, it is trained to estimate the disambiguated vector magnetogram as seen by Hinode / Solar Optical Telescope-Spectro-Polarimeter (SOT-SP). We show that MAGiDiff can accurately mimic the Hinode ground-truth. Additionally, we probe MAGiDiff's understanding of the physical structure and magnetic connectivity. On full-disk, we show that it produces plausible structures for active regions. MAGiDiff generalizes across solar cycles despite hemispheric polarity reversal, and can be fine-tuned to other EUV instruments including STEREO/EUVI and GOES-R/SUVI. While clearly not a substitute for a dedicated instrument, MAGiDiff opens the door to new capabilities.
https://arxiv.org/abs/2609.40043
Persistent spatial memory enables embodied agents to navigate familiar environments across repeated visits. However, targets may move while unobserved, including during navigation, making remembered locations unreliable by the time an agent arrives. Despite advances in memory retrieval and state prediction, accounting for continued hidden world evolution and revising beliefs under limited visibility remain challenging. We study Evolving-World Navigation, where agents infer target locations from intermittent observations, predict their states at inspection time, and revise beliefs using visual evidence. We propose EvolvingNav, which constructs a time-indexed belief from timestamped 3D object histories through a structured persistence-relocation model. The belief distinguishes persistence at the last observed location from relocation to alternative locations and retains probability mass outside the known candidate set. An event-driven filter propagates the current belief as time elapses, forecasts target occupancy at candidate inspection times, and incorporates new RGB-D evidence. Negative observations downweight location hypotheses according to calibrated, visibility-conditioned detection probabilities, while evidence tracking prevents repeated use of the same observations. A frozen, zero-shot vision-language controller uses the updated belief to choose actions and replan. We further introduce EvoWorld-Bench, a benchmark grounded in human activity traces, comprising 54 scenes and 803,680 tasks with controlled changes before and during navigation. In simulation and real-robot experiments, EvolvingNav improves navigation success and search efficiency over the evaluated baselines. Paired experiments show the clearest gains under learnable temporal patterns, while ablations demonstrate the value of preserving uncertainty and incorporating visibility-aware evidence.
https://arxiv.org/abs/2609.39166
Camera traps accumulated vast, multidimensional data for wildlife monitoring, yet translating raw media archives into meaningful ecological insights remains highly fragmented. Current research workflows require laboriously stitching together disparate analysis tools and scripts, creating steep programming hurdles and complicating end-to-end spatiotemporal analyses. To overcome this fragmentation, we present CamAgent, an autonomous Large Language Model (LLM) agent framework that integrates camera-trap analytical workflows into a unified intelligent ecosystem. CamAgent interprets natural-language ecological intent, schedules computational routing, and executes specialized tools spanning computer-vision perception (e.g., SpeciesNet), CamtrapDP-compatible data management, detection-corrected occupancy modeling, temporal activity analysis, and species co-occurrence networks. The framework automates multi-stage analytical pipelines while maintaining essential data-quality controls and analytical conventions. Consequently, CamAgent significantly reduces manual programming overhead for conservationists, establishing a transparent, scalable, and fully integrated paradigm for camera-trap ecology. Our project is available at this https URL.
https://arxiv.org/abs/2609.39112