Johns Hopkins University
Abstract:Variational autoencoders (VAEs) compress high resolution CT volumes into compact latents while preserving clinically relevant structure. However, training CT-specific VAEs from scratch or heavily fine-tuning them incurs substantial computational and engineering cost, and often degrades under heterogeneous scanners, protocols, and diseases. This paper makes a progressive stride toward training-free medical VAEs by leveraging a critical observation: a single Foundation VAE, pretrained at scale on natural images and videos, can serve as a unified interface for CT Reconstruction, Augmentation, and Generation. With both encoder and decoder frozen, the Foundation VAE reconstructs CT volumes with preserved anatomy while suppressing acquisition noise; training segmentation models on these reconstructions improves surface accuracy by 3.9% NSD on average for pancreatic tumor and lung tumor. Within the same Foundation VAE latent space, a conditional latent diffusion model achieves 3.9% lower average FVD with 36.2% higher CT CLIP score, and improves multi-disease generation faithfulness across 18 types by 2.76% AUC. These results demonstrate Foundation VAEs as a practical interface for scalable CT representation reuse and faithful CT generation. Our code and demo are available at https://github.com/qic999/Foundation-VAE.
Abstract:Learning deformable 3D object models from single-view in-the-wild images has enabled impressive 3D shape reconstruction without supervision. However, it remains unclear whether these models capture the semantic structure required for downstream tasks. We find that existing deformable reconstruction approaches, despite producing visually plausible geometry, yield unstable correspondences across instances and perform poorly on semantic correspondence benchmarks. We introduce SEMAGIC, a framework for learning semantically consistent deformable 3D representations from single-view in-the-wild images. Rather than treating reconstruction as the end goal, SEMAGIC uses deformable modeling as a mechanism to discover category-level correspondences. Each category is represented by a canonical template mesh and a learned deformation field, functioning similarly to an autoencoder that reconstructs instance geometry from image features, enabling vertices to maintain consistent semantic meaning across instances. Semantic consistency is enforced during training through (i) a feature-level consistency loss aligning semantic features between canonical and deformed meshes, and (ii) vertex-index-conditioned deformation that preserves semantic correspondence across instances. By explicitly coupling geometric deformation with semantic alignment, SEMAGIC produces representations that maintain stable part correspondences across intra-category variation. Experiments demonstrate that SEMAGIC improves semantic correspondence of deformable models by +14.7 PCK@0.1 on SPair-71k, establishing deformable models as effective semantic 3D representations.
Abstract:Multiview 3D evaluation assumes that the images being scored are observations of one static 3D scene. This assumption can fail in NVS and sparse-view reconstruction: inputs or generated outputs may contain artifacts, outlier frames, repeated views, or noise, yet still receive high 3D consistency scores. Existing reference-based metrics require ground truth, while ground-truth-free metrics such as MEt3R depend on learned reconstruction backbones whose failure modes are poorly characterized. We study this reliability problem by comparing neural reconstruction priors with classical geometric verification. We introduce \benchmark, a controlled robustness benchmark for multiview 3D consistency, and a parametric family that decomposes neural metrics into backbone, residual, and aggregation components. This family recovers MEt3R and yields variants up to $3\times$ more robust. Our analysis shows that VGGT, MASt3R, DUSt3R, and Fast3R can hallucinate dense geometry and cross-view support for unrelated scenes, repeated images, and random noise. We introduce COLMAP-based metrics that use matches, registration, dense support, and reconstruction failure as failure-aware consistency signals. On real NVS outputs and a structured human study, these metrics achieve up to $4\times$ higher correlation with human judgments than MEt3R.
Abstract:While self-supervised pretraining has reduced vision systems' reliance on synthetic data, simulation remains an indispensable tool for closed-loop optimization and rigorous out-of-distribution (OOD) evaluation. However, modern simulation platforms often present steep technical barriers, requiring extensive expertise in computer graphics and game development. In this work, we present LychSim, a highly controllable and interactive simulation framework built upon Unreal Engine 5 to bridge this gap. LychSim is built around three key designs: (1) a streamlined Python API that abstracts away underlying engine complexities; (2) a procedural data pipeline capable of generating diverse, high-fidelity environments with varying out-of-distribution (OOD) visual challenges, paired with rich 2D and 3D ground truths; and (3) a native integration of the Model Context Protocol (MCP) that transforms the simulator into a dynamic, closed-loop playground for reasoning agentic LLMs. We further annotate scene-level procedural rules and object-level pose alignments to enable semantically aligned 3D ground truths and automated scene modification. We demonstrate LychSim's capability across multiple downstream applications, including serving as a synthetic data engine, powering reinforcement learning-based adversarial examiners, and facilitating interactive, language-driven scene layout generation. To benefit the broader vision community, LychSim will be made publicly available, including full source code and various data annotations.
Abstract:Medical vision-language models (VLMs) and AI agents have made significant progress in learning to analyze and reason about clinical images. However, existing medical visual question answering (VQA) benchmarks collapse model capabilities into a single accuracy score, obscuring where and why models fail. We propose DeepTumorVQA, a hierarchical benchmark that follows the multi-stage evidence chain in tumor diagnosis and decomposes 3D CT reasoning into four stages: recognition, measurement, visual reasoning, and medical reasoning. Higher-level questions remain independently scorable, while their ground-truth evidence chains are defined over lower-level primitives. The benchmark contains 476K questions across 42 clinical subtypes on 9,262 3D CT volumes. In addition to a direct reasoning mode for VLMs, DeepTumorVQA provides tool-interaction environments for agent evaluation, where a model can call external tools, including segmentation models, measurement programs, and medical knowledge modules, before answering the question. Evaluating over 30 model configurations, we find that reliable quantitative measurement is the primary bottleneck, making later-stage visual and medical reasoning harder for VLMs, while tool augmentation substantially mitigates this issue. When tools are available, leveraging medical knowledge and tools to reason about medical images becomes a new challenge. We further show that ground-truth step-by-step tool-use traces from DeepTumorVQA can supervise agents and reduce tool-use and reasoning failures. This stage-wise progression from recognition to measurement to visual and medical reasoning provides a concrete roadmap for future medical VLM and AI agent studies. All data and code are released at https://github.com/Schuture/DeepTumorVQA.
Abstract:Text-to-image generation has advanced rapidly with diffusion models, progressing from CLIP and T5 conditioning to unified systems where a single LLM backbone handles both visual understanding and generation. Despite the architectural unification, these systems frequently fail to faithfully align complex prompts during synthesis, even though they remain highly accurate at verifying whether an image satisfies those same prompts. We formalize this as the \emph{understanding-generation gap} and propose UniReasoner, a framework that leverages the LLM as a universal reasoner to convert its understanding strength into direct generation guidance. Given a prompt, the LLM first produces a coarse visual draft composed of discrete vision tokens. It then performs a self-critique by evaluating the draft for prompt consistency, producing a grounded textual evaluation that pinpoints what needs to be corrected. Finally, a diffusion model is conditioned jointly on the prompt, the visual draft, and the evaluation, ensuring that generation is guided by explicit corrective signals. Each signal addresses a limitation of the other: the draft provides a concrete, scene-level anchor that reduces under-specification in text-only conditioning, while the evaluation turns verification into grounded, actionable constraints that correct omissions, hallucinations, and relational errors. Experiments show that UniReasoner improves compositional alignment and semantic faithfulness under the same diffusion backbone while maintaining image quality, demonstrating a practical way to exploit LLM reasoning to close the understanding-generation gap.
Abstract:In many science papers, "Figure 1" serves as the primary visual summary of the core research idea. These figures are visually simple yet conceptually rich, often requiring significant effort and iteration by human authors to get right, highlighting the difficulty of science visual communication. With this intuition, we introduce GENFIG1, a benchmark for generative AI models (e.g., Vision-Language Models). GENFIG1 evaluates models for their ability to produce figures that clearly express and motivate the central idea of a paper (title, abstract, introduction, and figure caption) as input. Solving GENFIG1 requires more than producing visually appealing graphics: the task entails reasoning for text-to-image generation that couples scientific understanding with visual synthesis. Specifically, models must (i) comprehend and grasp the technical concepts of the paper, (ii) identify the most salient ones, and (iii) design a coherent and aesthetically effective graphic that conveys those concepts visually and is faithful to the input. We curate the benchmark from papers published at top deep-learning conferences, apply stringent quality control, and introduce an automatic evaluation metric that correlates well with expert human judgments. We evaluate a suite of representative models on GENFIG1 and demonstrate that the task presents significant challenges, even for the best-performing systems. We hope this benchmark serves as a foundation for future progress in multimodal AI.
Abstract:Multi-modal large language models (MM-LLMs) have shown strong performance in medical image understanding and clinical reasoning. Recent medical agent systems extend them with tool use and multi-agent collaboration, enabling complex decision-making. However, these systems rely almost entirely on frontier models (e.g., GPT), whose API-based deployment incurs high cost, high latency, and privacy risks that conflict with on-premise clinical requirements. We present Meissa, a lightweight 4B-parameter medical MM-LLM that brings agentic capability offline. Instead of imitating static answers, Meissa learns both when to engage external interaction (strategy selection) and how to execute multi-step interaction (strategy execution) by distilling structured trajectories from frontier models. Specifically, we propose: (1) Unified trajectory modeling: trajectories (reasoning and action traces) are represented within a single state-action-observation formalism, allowing one model to generalize across heterogeneous medical environments. (2) Three-tier stratified supervision: the model's own errors trigger progressive escalation from direct reasoning to tool-augmented and multi-agent interaction, explicitly learning difficulty-aware strategy selection. (3) Prospective-retrospective supervision: pairing exploratory forward traces with hindsight-rationalized execution traces enables stable learning of effective interaction policies. Trained on 40K curated trajectories, Meissa matches or exceeds proprietary frontier agents in 10 of 16 evaluation settings across 13 medical benchmarks spanning radiology, pathology, and clinical reasoning. Using over 25x fewer parameters than typical frontier models like Gemini-3, Meissa operates fully offline with 22x lower end-to-end latency compared to API-based deployment. Data, models, and environments are released at https://github.com/Schuture/Meissa.
Abstract:Real-world videos naturally portray complex interactions among distinct physical objects, effectively forming dynamic compositions of visual elements. However, most current video generation models synthesize scenes holistically and therefore lack mechanisms for explicit compositional manipulation. To address this limitation, we propose HECTOR, a generative pipeline that enables fine-grained compositional control. In contrast to prior methods,HECTOR supports hybrid reference conditioning, allowing generation to be simultaneously guided by static images and/or dynamic videos. Moreover, users can explicitly specify the trajectory of each referenced element, precisely controlling its location, scale, and speed (see Figure1). This design allows the model to synthesize coherent videos that satisfy complex spatiotemporal constraints while preserving high-fidelity adherence to references. Extensive experiments demonstrate that HECTOR achieves superior visual quality, stronger reference preservation, and improved motion controllability compared with existing approaches.
Abstract:Rapid progress in video models has largely focused on visual quality, leaving their reasoning capabilities underexplored. Video reasoning grounds intelligence in spatiotemporally consistent visual environments that go beyond what text can naturally capture, enabling intuitive reasoning over spatiotemporal structure such as continuity, interaction, and causality. However, systematically studying video reasoning and its scaling behavior is hindered by the lack of large-scale training data. To address this gap, we introduce the Very Big Video Reasoning (VBVR) Dataset, an unprecedentedly large-scale resource spanning 200 curated reasoning tasks following a principled taxonomy and over one million video clips, approximately three orders of magnitude larger than existing datasets. We further present VBVR-Bench, a verifiable evaluation framework that moves beyond model-based judging by incorporating rule-based, human-aligned scorers, enabling reproducible and interpretable diagnosis of video reasoning capabilities. Leveraging the VBVR suite, we conduct one of the first large-scale scaling studies of video reasoning and observe early signs of emergent generalization to unseen reasoning tasks. Together, VBVR lays a foundation for the next stage of research in generalizable video reasoning. The data, benchmark toolkit, and models are publicly available at https://video-reason.com/ .