PyHealth 2.0: A Comprehensive Open-Source Toolkit for Accessible and Reproducible Clinical Deep Learning

Difficulty replicating baselines, high computational costs, and required domain expertise create persistent barriers to clinical AI research. To address these challenges, we introduce PyHealth 2.0, an enhanced clinical deep learning toolkit that enables predictive modeling in as few as 7 lines of code. PyHealth 2.0 offers three key contributions: (1) a comprehensive toolkit addressing reproducibility and compatibility challenges by unifying 15+ datasets, 20+ clinical tasks, 25+ models, 5+ interpretability methods, and uncertainty quantification including conformal prediction within a single framework that supports diverse clinical data modalities - signals, imaging, and electronic health records - with translation of 5+ medical coding standards; (2) accessibility-focused design accommodating multimodal data and diverse computational resources with up to 39x faster processing and 20x lower memory usage, enabling work from 16GB laptops to production systems; and (3) an active open-source community of 400+ members lowering domain expertise barriers through extensive documentation, reproducible research contributions, and collaborations with academic health systems and industry partners, including multi-language support via RHealth. PyHealth 2.0 establishes an open-source foundation and community advancing accessible, reproducible healthcare AI. Available at pip install pyhealth.

From Perception to Action: Spatial AI Agents and World Models

While large language models have become the prevailing approach for agentic reasoning and planning, their success in symbolic domains does not readily translate to the physical world. Spatial intelligence, the ability to perceive 3D structure, reason about object relationships, and act under physical constraints, is an orthogonal capability that proves important for embodied agents. Existing surveys address either agentic architectures or spatial domains in isolation. None provide a unified framework connecting these complementary capabilities. This paper bridges that gap. Through a thorough review of over 2,000 papers, citing 742 works from top-tier venues, we introduce a unified three-axis taxonomy connecting agentic capabilities with spatial tasks across scales. Crucially, we distinguish spatial grounding (metric understanding of geometry and physics) from symbolic grounding (associating images with text), arguing that perception alone does not confer agency. Our analysis reveals three key findings mapped to these axes: (1) hierarchical memory systems (Capability axis) are important for long-horizon spatial tasks. (2) GNN-LLM integration (Task axis) is a promising approach for structured spatial reasoning. (3) World models (Scale axis) are essential for safe deployment across micro-to-macro spatial scales. We conclude by identifying six grand challenges and outlining directions for future research, including the need for unified evaluation frameworks to standardize cross-domain assessment. This taxonomy provides a foundation for unifying fragmented research efforts and enabling the next generation of spatially-aware autonomous systems in robotics, autonomous vehicles, and geospatial intelligence.

Sim-to-Real Transfer via a Style-Identified Cycle Consistent Generative Adversarial Network: Zero-Shot Deployment on Robotic Manipulators through Visual Domain Adaptation

The sample efficiency challenge in Deep Reinforcement Learning (DRL) compromises its industrial adoption due to the high cost and time demands of real-world training. Virtual environments offer a cost-effective alternative for training DRL agents, but the transfer of learned policies to real setups is hindered by the sim-to-real gap. Achieving zero-shot transfer, where agents perform directly in real environments without additional tuning, is particularly desirable for its efficiency and practical value. This work proposes a novel domain adaptation approach relying on a Style-Identified Cycle Consistent Generative Adversarial Network (StyleID-CycleGAN or SICGAN), an original Cycle Consistent Generative Adversarial Network (CycleGAN) based model. SICGAN translates raw virtual observations into real-synthetic images, creating a hybrid domain for training DRL agents that combines virtual dynamics with real-like visual inputs. Following virtual training, the agent can be directly deployed, bypassing the need for real-world training. The pipeline is validated with two distinct industrial robots in the approaching phase of a pick-and-place operation. In virtual environments agents achieve success rates of 90 to 100\%, and real-world deployment confirms robust zero-shot transfer (i.e., without additional training in the physical environment) with accuracies above 95\% for most workspace regions. We use augmented reality targets to improve the evaluation process efficiency, and experimentally demonstrate that the agent successfully generalizes to real objects of varying colors and shapes, including LEGO\textsuperscript{\textregistered}~cubes and a mug. These results establish the proposed pipeline as an efficient, scalable solution to the sim-to-real problem.

Toward Autonomous Laboratory Safety Monitoring with Vision Language Models: Learning to See Hazards Through Scene Structure

Laboratories are prone to severe injuries from minor unsafe actions, yet continuous safety monitoring -- beyond mandatory pre-lab safety training -- is limited by human availability. Vision language models (VLMs) offer promise for autonomous laboratory safety monitoring, but their effectiveness in realistic settings is unclear due to the lack of visual evaluation data, as most safety incidents are documented primarily as unstructured text. To address this gap, we first introduce a structured data generation pipeline that converts textual laboratory scenarios into aligned triples of (image, scene graph, ground truth), using large language models as scene graph architects and image generation models as renderers. Our experiments on the synthetic dataset of 1,207 samples across 362 unique scenarios and seven open- and closed-source models show that VLMs perform effectively given textual scene graph, but degrade substantially in visual-only settings indicating difficulty in extracting structured object relationships directly from pixels. To overcome this, we propose a post-training context-engineering approach, scene-graph-guided alignment, to bridge perceptual gaps in VLMs by translating visual inputs into structured scene graphs better aligned with VLM reasoning, improving hazard detection performance in visual only settings.

Advanced Geometric Correction Algorithms for 3D Medical Reconstruction: Comparison of Computed Tomography and Macroscopic Imaging

This paper introduces a hybrid two-stage registration framework for reconstructing three-dimensional (3D) kidney anatomy from macroscopic slices, using CT-derived models as the geometric reference standard. The approach addresses the data-scarcity and high-distortion challenges typical of macroscopic imaging, where fully learning-based registration (e.g., VoxelMorph) often fails to generalize due to limited training diversity and large nonrigid deformations that exceed the capture range of unconstrained convolutional filters. In the proposed pipeline, the Optimal Cross-section Matching (OCM) algorithm first performs constrained global alignment: translation, rotation, and uniform scaling to establish anatomically consistent slice initialization. Next, a lightweight deep-learning refinement network, inspired by VoxelMorph, predicts residual local deformations between consecutive slices. The core novelty of this architecture lies in its hierarchical decomposition of the registration manifold. This hybrid OCM+DL design integrates explicit geometric priors with the flexible learning capacity of neural networks, ensuring stable optimization and plausible deformation fields even with few training examples. Experiments on an original dataset of 40 kidneys demonstrated better results compared to single-stage baselines. The pipeline maintains physical calibration via Hough-based grid detection and employs Bezier-based contour smoothing for robust meshing and volume estimation. Although validated on kidney data, the proposed framework generalizes to other soft-tissue organs reconstructed from optical or photographic cross-sections. By decoupling interpretable global optimization from data-efficient deep refinement, the method advances the precision, reproducibility, and anatomical realism of multimodal 3D reconstructions for surgical planning, morphological assessment, and medical education.

STARS: Shared-specific Translation and Alignment for missing-modality Remote Sensing Semantic Segmentation

Multimodal remote sensing technology significantly enhances the understanding of surface semantics by integrating heterogeneous data such as optical images, Synthetic Aperture Radar (SAR), and Digital Surface Models (DSM). However, in practical applications, the missing of modality data (e.g., optical or DSM) is a common and severe challenge, which leads to performance decline in traditional multimodal fusion models. Existing methods for addressing missing modalities still face limitations, including feature collapse and overly generalized recovered features. To address these issues, we propose \textbf{STARS} (\textbf{S}hared-specific \textbf{T}ranslation and \textbf{A}lignment for missing-modality \textbf{R}emote \textbf{S}ensing), a robust semantic segmentation framework for incomplete multimodal inputs. STARS is built on two key designs. First, we introduce an asymmetric alignment mechanism with bidirectional translation and stop-gradient, which effectively prevents feature collapse and reduces sensitivity to hyperparameters. Second, we propose a Pixel-level Semantic sampling Alignment (PSA) strategy that combines class-balanced pixel sampling with cross-modality semantic alignment loss, to mitigate alignment failures caused by severe class imbalance and improve minority-class recognition.

When Humans Judge Irises: Pupil Size Normalization as an Aid and Synthetic Irises as a Challenge

Iris recognition is a mature biometric technology offering remarkable precision and speed, and allowing for large-scale deployments to populations exceeding a billion enrolled users (e.g., AADHAAR in India). However, in forensic applications, a human expert may be needed to review and confirm a positive identification before an iris matching result can be presented as evidence in court, especially in cases where processed samples are degraded (e.g., in post-mortem cases) or where there is a need to judge whether the sample is authentic, rather than a result of a presentation attack. This paper presents a study that examines human performance in iris verification in two controlled scenarios: (a) under varying pupil sizes, with and without a linear/nonlinear alignment of the pupil size between compared images, and (b) when both genuine and impostor iris image pairs are synthetically generated. The results demonstrate that pupil size normalization carried out by a modern autoencoder-based identity-preserving image-to-image translation model significantly improves verification accuracy. Participants were also able to determine whether iris pairs corresponded to the same or different eyes when both images were either authentic or synthetic. However, accuracy declined when subjects were comparing authentic irises against high-quality, same-eye synthetic counterparts. These findings (a) demonstrate the importance of pupil-size alignment for iris matching tasks in which humans are involved, and (b) indicate that despite the high fidelity of modern generative models, same-eye synthetic iris images are more often judged by humans as different-eye images, compared to same-eye authentic image pairs. We offer data and human judgments along with this paper to allow full replicability of this study and future works.

From Rays to Projections: Better Inputs for Feed-Forward View Synthesis

Feed-forward view synthesis models predict a novel view in a single pass with minimal 3D inductive bias. Existing works encode cameras as Plücker ray maps, which tie predictions to the arbitrary world coordinate gauge and make them sensitive to small camera transformations, thereby undermining geometric consistency. In this paper, we ask what inputs best condition a model for robust and consistent view synthesis. We propose projective conditioning, which replaces raw camera parameters with a target-view projective cue that provides a stable 2D input. This reframes the task from a brittle geometric regression problem in ray space to a well-conditioned target-view image-to-image translation problem. Additionally, we introduce a masked autoencoding pretraining strategy tailored to this cue, enabling the use of large-scale uncalibrated data for pretraining. Our method shows improved fidelity and stronger cross-view consistency compared to ray-conditioned baselines on our view-consistency benchmark. It also achieves state-of-the-art quality on standard novel view synthesis benchmarks.

OSCAR: Optical-aware Semantic Control for Aleatoric Refinement in Sar-to-Optical Translation

Synthetic Aperture Radar (SAR) provides robust all-weather imaging capabilities; however, translating SAR observations into photo-realistic optical images remains a fundamentally ill-posed problem. Current approaches are often hindered by the inherent speckle noise and geometric distortions of SAR data, which frequently result in semantic misinterpretation, ambiguous texture synthesis, and structural hallucinations. To address these limitations, a novel SAR-to-Optical (S2O) translation framework is proposed, integrating three core technical contributions: (i) Cross-Modal Semantic Alignment, which establishes an Optical-Aware SAR Encoder by distilling robust semantic priors from an Optical Teacher into a SAR Student (ii) Semantically-Grounded Generative Guidance, realized by a Semantically-Grounded ControlNet that integrates class-aware text prompts for global context with hierarchical visual prompts for local spatial guidance; and (iii) an Uncertainty-Aware Objective, which explicitly models aleatoric uncertainty to dynamically modulate the reconstruction focus, effectively mitigating artifacts caused by speckle-induced ambiguity. Extensive experiments demonstrate that the proposed method achieves superior perceptual quality and semantic consistency compared to state-of-the-art approaches.

Deterministic Image-to-Image Translation via Denoising Brownian Bridge Models with Dual Approximators

Image-to-Image (I2I) translation involves converting an image from one domain to another. Deterministic I2I translation, such as in image super-resolution, extends this concept by guaranteeing that each input generates a consistent and predictable output, closely matching the ground truth (GT) with high fidelity. In this paper, we propose a denoising Brownian bridge model with dual approximators (Dual-approx Bridge), a novel generative model that exploits the Brownian bridge dynamics and two neural network-based approximators (one for forward and one for reverse process) to produce faithful output with negligible variance and high image quality in I2I translations. Our extensive experiments on benchmark datasets including image generation and super-resolution demonstrate the consistent and superior performance of Dual-approx Bridge in terms of image quality and faithfulness to GT when compared to both stochastic and deterministic baselines. Project page and code: https://github.com/bohan95/dual-app-bridge