Image segmentation remains a challenging task in computer vision, demanding robust mask generation and precise classification. Recent mask-based approaches yield high-quality masks by capturing global context. However, accurately classifying these masks, especially in the presence of ambiguous boundaries and imbalanced class distributions, remains an open challenge. In this work, we introduce ViT-P, a novel two-stage segmentation framework that decouples mask generation from classification. The first stage employs a proposal generator to produce class-agnostic mask proposals, while the second stage utilizes a point-based classification model built on the Vision Transformer (ViT) to refine predictions by focusing on mask central points. ViT-P serves as a pre-training-free adapter, allowing the integration of various pre-trained vision transformers without modifying their architecture, ensuring adaptability to dense prediction tasks. Furthermore, we demonstrate that coarse and bounding box annotations can effectively enhance classification without requiring additional training on fine annotation datasets, reducing annotation costs while maintaining strong performance. Extensive experiments across COCO, ADE20K, and Cityscapes datasets validate the effectiveness of ViT-P, achieving state-of-the-art results with 54.0 PQ on ADE20K panoptic segmentation, 87.4 mIoU on Cityscapes semantic segmentation, and 63.6 mIoU on ADE20K semantic segmentation. The code and pretrained models are available at: https://github.com/sajjad-sh33/ViT-P}{https://github.com/sajjad-sh33/ViT-P.
Deep learning-based medical image segmentation typically requires large amount of labeled data for training, making it less applicable in clinical settings due to high annotation cost. Semi-supervised learning (SSL) has emerged as an appealing strategy due to its less dependence on acquiring abundant annotations from experts compared to fully supervised methods. Beyond existing model-centric advancements of SSL by designing novel regularization strategies, we anticipate a paradigmatic shift due to the emergence of promptable segmentation foundation models with universal segmentation capabilities using positional prompts represented by Segment Anything Model (SAM). In this paper, we present SemiSAM+, a foundation model-driven SSL framework to efficiently learn from limited labeled data for medical image segmentation. SemiSAM+ consists of one or multiple promptable foundation models as generalist models, and a trainable task-specific segmentation model as specialist model. For a given new segmentation task, the training is based on the specialist-generalist collaborative learning procedure, where the trainable specialist model delivers positional prompts to interact with the frozen generalist models to acquire pseudo-labels, and then the generalist model output provides the specialist model with informative and efficient supervision which benefits the automatic segmentation and prompt generation in turn. Extensive experiments on two public datasets and one in-house clinical dataset demonstrate that SemiSAM+ achieves significant performance improvement, especially under extremely limited annotation scenarios, and shows strong efficiency as a plug-and-play strategy that can be easily adapted to different specialist and generalist models.
Positron Emission Tomography (PET) imaging plays a crucial role in modern medical diagnostics by revealing the metabolic processes within a patient's body, which is essential for quantification of therapy response and monitoring treatment progress. However, the segmentation of PET images presents unique challenges due to their lower contrast and less distinct boundaries compared to other structural medical modalities. Recent developments in segmentation foundation models have shown superior versatility across diverse natural image segmentation tasks. Despite the efforts of medical adaptations, these works primarily focus on structural medical images with detailed physiological structural information and exhibit poor generalization ability when adapted to molecular PET imaging. In this paper, we collect and construct PETS-5k, the largest PET segmentation dataset to date, comprising 5,731 three-dimensional whole-body PET images and encompassing over 1.3M 2D images. Based on the established dataset, we develop SegAnyPET, a modality-specific 3D foundation model for universal promptable segmentation from PET images. To issue the challenge of discrepant annotation quality of PET images, we adopt a cross prompting confident learning (CPCL) strategy with an uncertainty-guided self-rectification process to robustly learn segmentation from high-quality labeled data and low-quality noisy labeled data. Experimental results demonstrate that SegAnyPET can correctly segment seen and unseen targets using only one or a few prompt points, outperforming state-of-the-art foundation models and task-specific fully supervised models with higher accuracy and strong generalization ability for universal segmentation. As the first foundation model for PET images, we believe that SegAnyPET will advance the applications to various downstream tasks for molecular imaging.
Medical image segmentation is an important analysis task in clinical practice and research. Deep learning has massively advanced the field, but current approaches are mostly based on models trained for a specific task. Training such models or adapting them to a new condition is costly due to the need for (manually) labeled data. The emergence of vision foundation models, especially Segment Anything, offers a path to universal segmentation for medical images, overcoming these issues. Here, we study how to improve Segment Anything for medical images by comparing different finetuning strategies on a large and diverse dataset. We evaluate the finetuned models on a wide range of interactive and (automatic) semantic segmentation tasks. We find that the performance can be clearly improved for interactive segmentation. However, semantic segmentation does not benefit from pretraining on medical images. Our best model, MedicoSAM, is publicly available at https://github.com/computational-cell-analytics/medico-sam. We show that it is compatible with existing tools for data annotation and believe that it will be of great practical value.
Foreground segmentation is a fundamental task in computer vision, encompassing various subdivision tasks. Previous research has typically designed task-specific architectures for each task, leading to a lack of unification. Moreover, they primarily focus on recognizing foreground objects without effectively distinguishing them from the background. In this paper, we emphasize the importance of the background and its relationship with the foreground. We introduce FOCUS, the Foreground ObjeCts Universal Segmentation framework that can handle multiple foreground tasks. We develop a multi-scale semantic network using the edge information of objects to enhance image features. To achieve boundary-aware segmentation, we propose a novel distillation method, integrating the contrastive learning strategy to refine the prediction mask in multi-modal feature space. We conduct extensive experiments on a total of 13 datasets across 5 tasks, and the results demonstrate that FOCUS consistently outperforms the state-of-the-art task-specific models on most metrics.
Satisfactory progress has been achieved recently in universal segmentation of CT images. Following the success of vision-language methods, there is a growing trend towards utilizing text prompts and contrastive learning to develop universal segmentation models. However, there exists a significant imbalance in information density between 3D images and text prompts. Moreover, the standard fully connected layer segmentation approach faces significant challenges in handling multiple classes and exhibits poor generalizability. To address these challenges, we propose the VOxel Interacting with LAnguage method (VOILA) for universal CT image segmentation. Initially, we align voxels and language into a shared representation space and classify voxels on the basis of cosine similarity. Subsequently, we develop the Voxel-Language Interaction framework to mitigate the impact of class imbalance caused by foreground-background discrepancies and variations in target volumes. Furthermore, a Complexity-Aware Sampling method is proposed to focus on region hard to segment, achieved by generating pseudo-heatmaps from a trainable Gaussian mixture distribution. Our results indicate the proposed VOILA is capable to achieve improved performance with reduced parameters and computational cost during training. Furthermore, it demonstrates significant generalizability across diverse datasets without additional fine-tuning.
Boosted by Multi-modal Large Language Models (MLLMs), text-guided universal segmentation models for the image and video domains have made rapid progress recently. However, these methods are often developed separately for specific domains, overlooking the similarities in task settings and solutions across these two areas. In this paper, we define the union of referring segmentation and reasoning segmentation at both the image and video levels as Instructed Visual Segmentation (IVS). Correspondingly, we propose InstructSeg, an end-to-end segmentation pipeline equipped with MLLMs for IVS. Specifically, we employ an object-aware video perceiver to extract temporal and object information from reference frames, facilitating comprehensive video understanding. Additionally, we introduce vision-guided multi-granularity text fusion to better integrate global and detailed text information with fine-grained visual guidance. By leveraging multi-task and end-to-end training, InstructSeg demonstrates superior performance across diverse image and video segmentation tasks, surpassing both segmentation specialists and MLLM-based methods with a single model. Our code is available at https://github.com/congvvc/InstructSeg.
This paper aims to address universal segmentation for image and video perception with the strong reasoning ability empowered by Visual Large Language Models (VLLMs). Despite significant progress in current unified segmentation methods, limitations in adaptation to both image and video scenarios, as well as the complex reasoning segmentation, make it difficult for them to handle various challenging instructions and achieve an accurate understanding of fine-grained vision-language correlations. We propose HyperSeg, the first VLLM-based universal segmentation model for pixel-level image and video perception, encompassing generic segmentation tasks and more complex reasoning perception tasks requiring powerful reasoning abilities and world knowledge. Besides, to fully leverage the recognition capabilities of VLLMs and the fine-grained visual information, HyperSeg incorporates hybrid entity recognition and fine-grained visual perceiver modules for various segmentation tasks. Combined with the temporal adapter, HyperSeg achieves a comprehensive understanding of temporal information. Experimental results validate the effectiveness of our insights in resolving universal image and video segmentation tasks, including the more complex reasoning perception tasks. Our code is available.
Computed tomography (CT) report generation is crucial to assist radiologists in interpreting CT volumes, which can be time-consuming and labor-intensive. Existing methods primarily only consider the global features of the entire volume, making it struggle to focus on specific regions and potentially missing abnormalities. To address this issue, we propose Reg2RG, the first region-guided referring and grounding framework for CT report generation, which enhances diagnostic performance by focusing on anatomical regions within the volume. Specifically, we utilize masks from a universal segmentation module to capture local features for each referring region. A local feature decoupling (LFD) strategy is proposed to preserve the local high-resolution details with little computational overhead. Then the local features are integrated with global features to capture inter-regional relationships within a cohesive context. Moreover, we propose a novel region-report alignment (RRA) training strategy. It leverages the recognition of referring regions to guide the generation of region-specific reports, enhancing the model's referring and grounding capabilities while also improving the report's interpretability. A large language model (LLM) is further employed as the language decoder to generate reports from integrated visual features, facilitating region-level comprehension. Extensive experiments on two large-scale chest CT-report datasets demonstrate the superiority of our method, which outperforms several state-of-the-art methods in terms of both natural language generation and clinical efficacy metrics while preserving promising interpretability. The code is available at https://github.com/zhi-xuan-chen/Reg2RG.
Universal segmentation models offer significant potential in addressing a wide range of tasks by effectively leveraging discrete annotations. As the scope of tasks and modalities expands, it becomes increasingly important to generate and strategically position task- and modal-specific priors within the universal model. However, existing universal models often overlook the correlations between different priors, and the optimal placement and frequency of these priors remain underexplored. In this paper, we introduce MedUniSeg, a prompt-driven universal segmentation model designed for 2D and 3D multi-task segmentation across diverse modalities and domains. MedUniSeg employs multiple modal-specific prompts alongside a universal task prompt to accurately characterize the modalities and tasks. To generate the related priors, we propose the modal map (MMap) and the fusion and selection (FUSE) modules, which transform modal and task prompts into corresponding priors. These modal and task priors are systematically introduced at the start and end of the encoding process. We evaluate MedUniSeg on a comprehensive multi-modal upstream dataset consisting of 17 sub-datasets. The results demonstrate that MedUniSeg achieves superior multi-task segmentation performance, attaining a 1.2% improvement in the mean Dice score across the 17 upstream tasks compared to nnUNet baselines, while using less than 1/10 of the parameters. For tasks that underperform during the initial multi-task joint training, we freeze MedUniSeg and introduce new modules to re-learn these tasks. This approach yields an enhanced version, MedUniSeg*, which consistently outperforms MedUniSeg across all tasks. Moreover, MedUniSeg surpasses advanced self-supervised and supervised pre-trained models on six downstream tasks, establishing itself as a high-quality, highly generalizable pre-trained segmentation model.
Visible and Infrared Image Fusion (VIF) has garnered significant interest across a wide range of high-level vision tasks, such as object detection and semantic segmentation. However, the evaluation of VIF methods remains challenging due to the absence of ground truth. This paper proposes a Segmentation-oriented Evaluation Approach (SEA) to assess VIF methods by incorporating the semantic segmentation task and leveraging segmentation labels available in latest VIF datasets. Specifically, SEA utilizes universal segmentation models, capable of handling diverse images and classes, to predict segmentation outputs from fused images and compare these outputs with segmentation labels. Our evaluation of recent VIF methods using SEA reveals that their performance is comparable or even inferior to using visible images only, despite nearly half of the infrared images demonstrating better performance than visible images. Further analysis indicates that the two metrics most correlated to our SEA are the gradient-based fusion metric $Q_{\text{ABF}}$ and the visual information fidelity metric $Q_{\text{VIFF}}$ in conventional VIF evaluation metrics, which can serve as proxies when segmentation labels are unavailable. We hope that our evaluation will guide the development of novel and practical VIF methods. The code has been released in \url{https://github.com/Yixuan-2002/SEA/}.
Current universal segmentation methods demonstrate strong capabilities in pixel-level image and video understanding. However, they lack reasoning abilities and cannot be controlled via text instructions. In contrast, large vision-language multimodal models exhibit powerful vision-based conversation and reasoning capabilities but lack pixel-level understanding and have difficulty accepting visual prompts for flexible user interaction. This paper proposes OMG-LLaVA, a new and elegant framework combining powerful pixel-level vision understanding with reasoning abilities. It can accept various visual and text prompts for flexible user interaction. Specifically, we use a universal segmentation method as the visual encoder, integrating image information, perception priors, and visual prompts into visual tokens provided to the LLM. The LLM is responsible for understanding the user's text instructions and providing text responses and pixel-level segmentation results based on the visual information. We propose perception prior embedding to better integrate perception priors with image features. OMG-LLaVA achieves image-level, object-level, and pixel-level reasoning and understanding in a single model, matching or surpassing the performance of specialized methods on multiple benchmarks. Rather than using LLM to connect each specialist, our work aims at end-to-end training on one encoder, one decoder, and one LLM. The code and model have been released for further research.
Vision language models (VLMs) have recently emerged and gained the spotlight for their ability to comprehend the dual modality of image and textual data. VLMs such as LLaVA, ChatGPT-4, and Gemini have recently shown impressive performance on tasks such as natural image captioning, visual question answering (VQA), and spatial reasoning. Additionally, a universal segmentation model by Meta AI, Segment Anything Model (SAM) shows unprecedented performance at isolating objects from unforeseen images. Since medical experts, biologists, and materials scientists routinely examine microscopy or medical images in conjunction with textual information in the form of captions, literature, or reports, and draw conclusions of great importance and merit, it is indubitably essential to test the performance of VLMs and foundation models such as SAM, on these images. In this study, we charge ChatGPT, LLaVA, Gemini, and SAM with classification, segmentation, counting, and VQA tasks on a variety of microscopy images. We observe that ChatGPT and Gemini are impressively able to comprehend the visual features in microscopy images, while SAM is quite capable at isolating artefacts in a general sense. However, the performance is not close to that of a domain expert - the models are readily encumbered by the introduction of impurities, defects, artefact overlaps and diversity present in the images.
Developing generalist foundation model has recently attracted tremendous attention among researchers in the field of AI for Medicine (AI4Medicine). A pivotal insight in developing these models is their reliance on dataset scaling, which emphasizes the requirements on developing open-source medical image datasets that incorporate diverse supervision signals across various imaging modalities. In this paper, we introduce RadGenome-Chest CT, a comprehensive, large-scale, region-guided 3D chest CT interpretation dataset based on CT-RATE. Specifically, we leverage the latest powerful universal segmentation and large language models, to extend the original datasets (over 25,692 non-contrast 3D chest CT volume and reports from 20,000 patients) from the following aspects: (i) organ-level segmentation masks covering 197 categories, which provide intermediate reasoning visual clues for interpretation; (ii) 665 K multi-granularity grounded reports, where each sentence of the report is linked to the corresponding anatomical region of CT volume in the form of a segmentation mask; (iii) 1.3 M grounded VQA pairs, where questions and answers are all linked with reference segmentation masks, enabling models to associate visual evidence with textual explanations. All grounded reports and VQA pairs in the validation set have gone through manual verification to ensure dataset quality. We believe that RadGenome-Chest CT can significantly advance the development of multimodal medical foundation models, by training to generate texts based on given segmentation regions, which is unattainable with previous relevant datasets. We will release all segmentation masks, grounded reports, and VQA pairs to facilitate further research and development in this field.
A powerful architecture for universal segmentation relies on transformers that encode multi-scale image features and decode object queries into mask predictions. With efficiency being a high priority for scaling such models, we observed that the state-of-the-art method Mask2Former uses 50% of its compute only on the transformer encoder. This is due to the retention of a full-length token-level representation of all backbone feature scales at each encoder layer. With this observation, we propose a strategy termed PROgressive Token Length SCALing for Efficient transformer encoders (PRO-SCALE) that can be plugged-in to the Mask2Former segmentation architecture to significantly reduce the computational cost. The underlying principle of PRO-SCALE is: progressively scale the length of the tokens with the layers of the encoder. This allows PRO-SCALE to reduce computations by a large margin with minimal sacrifice in performance (~52% encoder and ~27% overall GFLOPs reduction with no drop in performance on COCO dataset). Experiments conducted on public benchmarks demonstrates PRO-SCALE's flexibility in architectural configurations, and exhibits potential for extension beyond the settings of segmentation tasks to encompass object detection. Code here: https://github.com/abhishekaich27/proscale-pytorch
In recent decades, the vision community has witnessed remarkable progress in visual recognition, partially owing to advancements in dataset benchmarks. Notably, the established COCO benchmark has propelled the development of modern detection and segmentation systems. However, the COCO segmentation benchmark has seen comparatively slow improvement over the last decade. Originally equipped with coarse polygon annotations for thing instances, it gradually incorporated coarse superpixel annotations for stuff regions, which were subsequently heuristically amalgamated to yield panoptic segmentation annotations. These annotations, executed by different groups of raters, have resulted not only in coarse segmentation masks but also in inconsistencies between segmentation types. In this study, we undertake a comprehensive reevaluation of the COCO segmentation annotations. By enhancing the annotation quality and expanding the dataset to encompass 383K images with more than 5.18M panoptic masks, we introduce COCONut, the COCO Next Universal segmenTation dataset. COCONut harmonizes segmentation annotations across semantic, instance, and panoptic segmentation with meticulously crafted high-quality masks, and establishes a robust benchmark for all segmentation tasks. To our knowledge, COCONut stands as the inaugural large-scale universal segmentation dataset, verified by human raters. We anticipate that the release of COCONut will significantly contribute to the community's ability to assess the progress of novel neural networks.
In the field of medical image segmentation, tackling Out-of-Distribution (OOD) segmentation tasks in a cost-effective manner remains a significant challenge. Universal segmentation models is a solution, which aim to generalize across the diverse modality of medical images, yet their effectiveness often diminishes when applied to OOD data modalities and tasks, requiring intricate fine-tuning of model for optimal performance. Few-shot learning segmentation methods are typically designed for specific modalities of data and cannot be directly transferred for use with another modality. Therefore, we introduce SegICL, a novel approach leveraging In-Context Learning (ICL) for image segmentation. Unlike existing methods, SegICL has the capability to employ text-guided segmentation and conduct in-context learning with a small set of image-mask pairs, eliminating the need for training the model from scratch or fine-tuning for OOD tasks (including OOD modality and dataset). Extensive experimental demonstrates a positive correlation between the number of shots and segmentation performance on OOD tasks. The performance of segmentation when provided thre-shots is approximately 1.5 times better than the performance in a zero-shot setting. This indicates that SegICL effectively address new segmentation tasks based on contextual information. Additionally, SegICL also exhibits comparable performance to mainstream models on OOD and in-distribution tasks. Our code will be released after paper review.
Several unsupervised image segmentation approaches have been proposed which eliminate the need for dense manually-annotated segmentation masks; current models separately handle either semantic segmentation (e.g., STEGO) or class-agnostic instance segmentation (e.g., CutLER), but not both (i.e., panoptic segmentation). We propose an Unsupervised Universal Segmentation model (U2Seg) adept at performing various image segmentation tasks -- instance, semantic and panoptic -- using a novel unified framework. U2Seg generates pseudo semantic labels for these segmentation tasks via leveraging self-supervised models followed by clustering; each cluster represents different semantic and/or instance membership of pixels. We then self-train the model on these pseudo semantic labels, yielding substantial performance gains over specialized methods tailored to each task: a +2.6 AP$^{\text{box}}$ boost vs. CutLER in unsupervised instance segmentation on COCO and a +7.0 PixelAcc increase (vs. STEGO) in unsupervised semantic segmentation on COCOStuff. Moreover, our method sets up a new baseline for unsupervised panoptic segmentation, which has not been previously explored. U2Seg is also a strong pretrained model for few-shot segmentation, surpassing CutLER by +5.0 AP$^{\text{mask}}$ when trained on a low-data regime, e.g., only 1% COCO labels. We hope our simple yet effective method can inspire more research on unsupervised universal image segmentation.
In this study, we aim to build up a model that can Segment Anything in radiology scans, driven by medical terminologies as Text prompts, termed as SAT. Our main contributions are three folds: (i) for dataset construction, we construct the first multi-modal knowledge tree on human anatomy, including 6502 anatomical terminologies; Then, we build up the largest and most comprehensive segmentation dataset for training, by collecting over 22K 3D medical image scans from72 segmentation datasets, across 497 classes, with careful standardization on both image scans and label space; (ii) for architecture design, we propose to inject medical knowledge into a text encoder via contrastive learning, and then formulate a universal segmentation model, that can be prompted by feeding in medical terminologies in text form; (iii) As a result, we have trained SAT-Nano (110M parameters) and SAT-Pro (447M parameters), demonstrating superior or comparable performance to 72 specialist models, i.e., nnU-Nets, U-Mamba or SwinUNETR, trained on each dataset/subsets. We validate SAT as a foundational segmentation model, with better generalization on external (cross-center) datasets, and can be further improved on specific tasks after fine-tuning adaptation. Comparing with state-of-the-art interactive segmentation model MedSAM, SAT demonstrate superior performance, scalability and robustness. We further compare SAT with BiomedParse, and observe SAT is significantly superior in both internal and external evaluation. Through extensive ablation study, we validate the benefit of domain knowledge on universal segmentation, especially on tail categories. As a use case, we demonstrate that SAT can act as a powerful out-of-the-box agent for large language models, enabling visual grounding in versatile application scenarios. All the data, codes, and models in this work have been released.
This paper aims to achieve universal segmentation of arbitrary semantic level. Despite significant progress in recent years, specialist segmentation approaches are limited to specific tasks and data distribution. Retraining a new model for adaptation to new scenarios or settings takes expensive computation and time cost, which raises the demand for versatile and universal segmentation model that can cater to various granularity. Although some attempts have been made for unifying different segmentation tasks or generalization to various scenarios, limitations in the definition of paradigms and input-output spaces make it difficult for them to achieve accurate understanding of content at arbitrary granularity. To this end, we present UniLSeg, a universal segmentation model that can perform segmentation at any semantic level with the guidance of language instructions. For training UniLSeg, we reorganize a group of tasks from original diverse distributions into a unified data format, where images with texts describing segmentation targets as input and corresponding masks are output. Combined with a automatic annotation engine for utilizing numerous unlabeled data, UniLSeg achieves excellent performance on various tasks and settings, surpassing both specialist and unified segmentation models.