The availability of large-scale remote sensing video data underscores the importance of high-quality interactive segmentation. However, challenges such as small object sizes, ambiguous features, and limited generalization make it difficult for current methods to achieve this goal. In this work, we propose ROS-SAM, a method designed to achieve high-quality interactive segmentation while preserving generalization across diverse remote sensing data. The ROS-SAM is built upon three key innovations: 1) LoRA-based fine-tuning, which enables efficient domain adaptation while maintaining SAM's generalization ability, 2) Enhancement of deep network layers to improve the discriminability of extracted features, thereby reducing misclassifications, and 3) Integration of global context with local boundary details in the mask decoder to generate high-quality segmentation masks. Additionally, we design the data pipeline to ensure the model learns to better handle objects at varying scales during training while focusing on high-quality predictions during inference. Experiments on remote sensing video datasets show that the redesigned data pipeline boosts the IoU by 6%, while ROS-SAM increases the IoU by 13%. Finally, when evaluated on existing remote sensing object tracking datasets, ROS-SAM demonstrates impressive zero-shot capabilities, generating masks that closely resemble manual annotations. These results confirm ROS-SAM as a powerful tool for fine-grained segmentation in remote sensing applications. Code is available at https://github.com/ShanZard/ROS-SAM.
Accurate and efficient 3D segmentation is essential for both clinical and research applications. While foundation models like SAM have revolutionized interactive segmentation, their 2D design and domain shift limitations make them ill-suited for 3D medical images. Current adaptations address some of these challenges but remain limited, either lacking volumetric awareness, offering restricted interactivity, or supporting only a small set of structures and modalities. Usability also remains a challenge, as current tools are rarely integrated into established imaging platforms and often rely on cumbersome web-based interfaces with restricted functionality. We introduce nnInteractive, the first comprehensive 3D interactive open-set segmentation method. It supports diverse prompts-including points, scribbles, boxes, and a novel lasso prompt-while leveraging intuitive 2D interactions to generate full 3D segmentations. Trained on 120+ diverse volumetric 3D datasets (CT, MRI, PET, 3D Microscopy, etc.), nnInteractive sets a new state-of-the-art in accuracy, adaptability, and usability. Crucially, it is the first method integrated into widely used image viewers (e.g., Napari, MITK), ensuring broad accessibility for real-world clinical and research applications. Extensive benchmarking demonstrates that nnInteractive far surpasses existing methods, setting a new standard for AI-driven interactive 3D segmentation. nnInteractive is publicly available: https://github.com/MIC-DKFZ/napari-nninteractive (Napari plugin), https://www.mitk.org/MITK-nnInteractive (MITK integration), https://github.com/MIC-DKFZ/nnInteractive (Python backend).
Interactive segmentation models use real-time user interactions, such as mouse clicks, as extra inputs to dynamically refine the model predictions. After model deployment, user corrections of model predictions could be used to adapt the model to the post-deployment data distribution, countering distribution-shift and enhancing reliability. Motivated by this, we introduce an online adaptation framework that enables an interactive segmentation model to continuously learn from user interaction and improve its performance on new data distributions, as it processes a sequence of test images. We introduce the Gaussian Point Loss function to train the model how to leverage user clicks, along with a two-stage online optimization method that adapts the model using the corrected predictions generated via user interactions. We demonstrate that this simple and therefore practical approach is very effective. Experiments on 5 fundus and 4 brain MRI databases demonstrate that our method outperforms existing approaches under various data distribution shifts, including segmentation of image modalities and pathologies not seen during training.
Automated CT report generation plays a crucial role in improving diagnostic accuracy and clinical workflow efficiency. However, existing methods lack interpretability and impede patient-clinician understanding, while their static nature restricts radiologists from dynamically adjusting assessments during image review. Inspired by interactive segmentation techniques, we propose a novel interactive framework for 3D lesion morphology reporting that seamlessly generates segmentation masks with comprehensive attribute descriptions, enabling clinicians to generate detailed lesion profiles for enhanced diagnostic assessment. To our best knowledge, we are the first to integrate the interactive segmentation and structured reports in 3D CT medical images. Experimental results across 15 lesion types demonstrate the effectiveness of our approach in providing a more comprehensive and reliable reporting system for lesion segmentation and capturing. The source code will be made publicly available following paper acceptance.
Medical image sequences, generated by both 2D video-based examinations and 3D imaging techniques, consist of sequential frames or slices that capture the same anatomical entities (e.g., organs or lesions) from multiple perspectives. Existing segmentation studies typically process medical images using either 2D or 3D methods in isolation, often overlooking the inherent consistencies among these images. Additionally, interactive segmentation, while highly beneficial in clinical scenarios, faces the challenge of integrating text prompts effectively across multi-modalities. To address these issues, we introduce an innovative task, Referring Medical Image Sequence Segmentation for the first time, which aims to segment the referred anatomical entities corresponding to medical text prompts. We develop a strong baseline model, Text-Promptable Propagation (TPP), designed to exploit the intrinsic relationships among sequential images and their associated textual descriptions. TPP supports the segmentation of arbitrary objects of interest based on cross-modal prompt fusion. Carefully designed medical prompts are fused and employed as queries to guide image sequence segmentation through triple-propagation. We curate a large and comprehensive benchmark covering 4 modalities and 20 different organs and lesions. Experimental results consistently demonstrate the superior performance of our approach compared to previous methods across these datasets.
The recent Segment Anything Models (SAMs) have emerged as foundational visual models for general interactive segmentation. Despite demonstrating robust generalization abilities, they still suffer performance degradations in scenarios demanding accurate masks. Existing methods for high-precision interactive segmentation face a trade-off between the ability to perceive intricate local details and maintaining stable prompting capability, which hinders the applicability and effectiveness of foundational segmentation models. To this end, we present an SAM2Refiner framework built upon the SAM2 backbone. This architecture allows SAM2 to generate fine-grained segmentation masks for both images and videos while preserving its inherent strengths. Specifically, we design a localization augment module, which incorporates local contextual cues to enhance global features via a cross-attention mechanism, thereby exploiting potential detailed patterns and maintaining semantic information. Moreover, to strengthen the prompting ability toward the enhanced object embedding, we introduce a prompt retargeting module to renew the embedding with spatially aligned prompt features. In addition, to obtain accurate high resolution segmentation masks, a mask refinement module is devised by employing a multi-scale cascaded structure to fuse mask features with hierarchical representations from the encoder. Extensive experiments demonstrate the effectiveness of our approach, revealing that the proposed method can produce highly precise masks for both images and videos, surpassing state-of-the-art methods.
Nucleus segmentation is an important analysis task in digital pathology. However, methods for automatic segmentation often struggle with new data from a different distribution, requiring users to manually annotate nuclei and retrain data-specific models. Vision foundation models (VFMs), such as the Segment Anything Model (SAM), offer a more robust alternative for automatic and interactive segmentation. Despite their success in natural images, a foundation model for nucleus segmentation in histopathology is still missing. Initial efforts to adapt SAM have shown some success, but did not yet introduce a comprehensive model for diverse segmentation tasks. To close this gap, we introduce PathoSAM, a VFM for nucleus segmentation, based on training SAM on a diverse dataset. Our extensive experiments show that it is the new state-of-the-art model for automatic and interactive nucleus instance segmentation in histopathology. We also demonstrate how it can be adapted for other segmentation tasks, including semantic nucleus segmentation. For this task, we show that it yields results better than popular methods, while not yet beating the state-of-the-art, CellViT. Our models are open-source and compatible with popular tools for data annotation. We also provide scripts for whole-slide image segmentation. Our code and models are publicly available at https://github.com/computational-cell-analytics/patho-sam.
Sketches, with their expressive potential, allow humans to convey the essence of an object through even a rough contour. For the first time, we harness this expressive potential to improve segmentation performance in challenging tasks like camouflaged object detection (COD). Our approach introduces an innovative sketch-guided interactive segmentation framework, allowing users to intuitively annotate objects with freehand sketches (drawing a rough contour of the object) instead of the traditional bounding boxes or points used in classic interactive segmentation models like SAM. We demonstrate that sketch input can significantly improve performance in existing iterative segmentation methods, outperforming text or bounding box annotations. Additionally, we introduce key modifications to network architectures and a novel sketch augmentation technique to fully harness the power of sketch input and further boost segmentation accuracy. Remarkably, our model' s output can be directly used to train other neural networks, achieving results comparable to pixel-by-pixel annotations--while reducing annotation time by up to 120 times, which shows great potential in democratizing the annotation process and enabling model training with less reliance on resource-intensive, laborious pixel-level annotations. We also present KOSCamo+, the first freehand sketch dataset for camouflaged object detection. The dataset, code, and the labeling tool will be open sourced.
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.
In this paper, we present a novel architecture for interactive segmentation in winter sports contexts. The field of interactive segmentation deals with the prediction of high-quality segmentation masks by informing the network about the objects position with the help of user guidance. In our case the guidance consists of click prompts. For this task, we first present a baseline architecture which is specifically geared towards quickly responding after each click. Afterwards, we motivate and describe a number of architectural modifications which improve the performance when tasked with segmenting winter sports equipment on the WSESeg dataset. With regards to the average NoC@85 metric on the WSESeg classes, we outperform SAM and HQ-SAM by 2.336 and 7.946 clicks, respectively. When applied to the HQSeg-44k dataset, our system delivers state-of-the-art results with a NoC@90 of 6.00 and NoC@95 of 9.89. In addition to that, we test our model on a novel dataset containing masks for humans during skiing.
Accurate and robust ultrasound image segmentation is critical for computer-aided diagnostic systems. Nevertheless, the inherent challenges of ultrasound imaging, such as blurry boundaries and speckle noise, often cause traditional segmentation methods to struggle with performance. Despite recent advancements in universal image segmentation, such as the Segment Anything Model, existing interactive segmentation methods still suffer from inefficiency and lack of specialization. These methods rely heavily on extensive accurate manual or random sampling prompts for interaction, necessitating numerous prompts and iterations to reach satisfactory performance. In response to this challenge, we propose the Evidential Uncertainty-Guided Interactive Segmentation (EUGIS), an end-to-end, efficient tiered interactive segmentation paradigm based on evidential uncertainty estimation for ultrasound image segmentation. Specifically, EUGIS harnesses evidence-based uncertainty estimation, grounded in Dempster-Shafer theory and Subjective Logic, to gauge the level of uncertainty in the predictions of model for different regions. By prioritizing sampling the high-uncertainty region, our method can effectively simulate the interactive behavior of well-trained radiologists, enhancing the targeted of sampling while reducing the number of prompts and iterations required.Additionally, we propose a trainable calibration mechanism for uncertainty estimation, which can further optimize the boundary between certainty and uncertainty, thereby enhancing the confidence of uncertainty estimation.
Despite the advances in learning-based image segmentation approach, the accurate segmentation of cardiac structures from magnetic resonance imaging (MRI) remains a critical challenge. While existing automatic segmentation methods have shown promise, they still require extensive manual corrections of the segmentation results by human experts, particularly in complex regions such as the basal and apical parts of the heart. Recent efforts have been made on developing interactive image segmentation methods that enable human-in-the-loop learning. However, they are semi-automatic and inefficient, due to their reliance on click-based prompts, especially for 3D cardiac MRI volumes. To address these limitations, we propose VerSe, a Versatile Segmentation framework to unify automatic and interactive segmentation through mutiple queries. Our key innovation lies in the joint learning of object and click queries as prompts for a shared segmentation backbone. VerSe supports both fully automatic segmentation, through object queries, and interactive mask refinement, by providing click queries when needed. With the proposed integrated prompting scheme, VerSe demonstrates significant improvement in performance and efficiency over existing methods, on both cardiac MRI and out-of-distribution medical imaging datasets. The code is available at https://github.com/bangwayne/Verse.
Medical researchers and clinicians often need to perform novel segmentation tasks on a set of related images. Existing methods for segmenting a new dataset are either interactive, requiring substantial human effort for each image, or require an existing set of manually labeled images. We introduce a system, MultiverSeg, that enables practitioners to rapidly segment an entire new dataset without requiring access to any existing labeled data from that task or domain. Along with the image to segment, the model takes user interactions such as clicks, bounding boxes or scribbles as input, and predicts a segmentation. As the user segments more images, those images and segmentations become additional inputs to the model, providing context. As the context set of labeled images grows, the number of interactions required to segment each new image decreases. We demonstrate that MultiverSeg enables users to interactively segment new datasets efficiently, by amortizing the number of interactions per image to achieve an accurate segmentation. Compared to using a state-of-the-art interactive segmentation method, using MultiverSeg reduced the total number of scribble steps by 53% and clicks by 36% to achieve 90% Dice on sets of images from unseen tasks. We release code and model weights at https://multiverseg.csail.mit.edu
Interactive segmentation aims to extract objects of interest from an image based on user-provided clicks. In real-world applications, there is often a need to segment a series of images featuring the same target object. However, existing methods typically process one image at a time, failing to consider the sequential nature of the images. To overcome this limitation, we propose a novel method called Sequence Prompt Transformer (SPT), the first to utilize sequential image information for interactive segmentation. Our model comprises two key components: (1) Sequence Prompt Transformer (SPT) for acquiring information from sequence of images, clicks and masks to improve accurate. (2) Top-k Prompt Selection (TPS) selects precise prompts for SPT to further enhance the segmentation effect. Additionally, we create the ADE20K-Seq benchmark to better evaluate model performance. We evaluate our approach on multiple benchmark datasets and show that our model surpasses state-of-the-art methods across all datasets.
Recent advances in Gaussian Splatting have significantly advanced the field, achieving both panoptic and interactive segmentation of 3D scenes. However, existing methodologies often overlook the critical need for reconstructing specified targets with complex structures from sparse views. To address this issue, we introduce TSGaussian, a novel framework that combines semantic constraints with depth priors to avoid geometry degradation in challenging novel view synthesis tasks. Our approach prioritizes computational resources on designated targets while minimizing background allocation. Bounding boxes from YOLOv9 serve as prompts for Segment Anything Model to generate 2D mask predictions, ensuring semantic accuracy and cost efficiency. TSGaussian effectively clusters 3D gaussians by introducing a compact identity encoding for each Gaussian ellipsoid and incorporating 3D spatial consistency regularization. Leveraging these modules, we propose a pruning strategy to effectively reduce redundancy in 3D gaussians. Extensive experiments demonstrate that TSGaussian outperforms state-of-the-art methods on three standard datasets and a new challenging dataset we collected, achieving superior results in novel view synthesis of specific objects. Code is available at: https://github.com/leon2000-ai/TSGaussian.
In medical imaging, precise annotation of lesions or organs is often required. However, 3D volumetric images typically consist of hundreds or thousands of slices, making the annotation process extremely time-consuming and laborious. Recently, the Segment Anything Model (SAM) has drawn widespread attention due to its remarkable zero-shot generalization capabilities in interactive segmentation. While researchers have explored adapting SAM for medical applications, such as using SAM adapters or constructing 3D SAM models, a key question remains: Can traditional CNN networks achieve the same strong zero-shot generalization in this task? In this paper, we propose the Lightweight Interactive Network for 3D Medical Image Segmentation (LIM-Net), a novel approach demonstrating the potential of compact CNN-based models. Built upon a 2D CNN backbone, LIM-Net initiates segmentation by generating a 2D prompt mask from user hints. This mask is then propagated through the 3D sequence via the Memory Module. To refine and stabilize results during interaction, the Multi-Round Result Fusion (MRF) Module selects and merges optimal masks from multiple rounds. Our extensive experiments across multiple datasets and modalities demonstrate LIM-Net's competitive performance. It exhibits stronger generalization to unseen data compared to SAM-based models, with competitive accuracy while requiring fewer interactions. Notably, LIM-Net's lightweight design offers significant advantages in deployment and inference efficiency, with low GPU memory consumption suitable for resource-constrained environments. These promising results demonstrate LIM-Net can serve as a strong baseline, complementing and contrasting with popular SAM models to further boost effective interactive medical image segmentation. The code will be released at \url{https://github.com/goodtime-123/LIM-Net}.
Image segmentation foundation models (SFMs) like Segment Anything Model (SAM) have achieved impressive zero-shot and interactive segmentation across diverse domains. However, they struggle to segment objects with certain structures, particularly those with dense, tree-like morphology and low textural contrast from their surroundings. These failure modes are crucial for understanding the limitations of SFMs in real-world applications. To systematically study this issue, we introduce interpretable metrics quantifying object tree-likeness and textural separability. On carefully controlled synthetic experiments and real-world datasets, we show that SFM performance (e.g., SAM, SAM 2, HQ-SAM) noticeably correlates with these factors. We link these failures to "textural confusion", where models misinterpret local structure as global texture, causing over-segmentation or difficulty distinguishing objects from similar backgrounds. Notably, targeted fine-tuning fails to resolve this issue, indicating a fundamental limitation. Our study provides the first quantitative framework for modeling the behavior of SFMs on challenging structures, offering interpretable insights into their segmentation capabilities.
In medical image analysis, achieving fast, efficient, and accurate segmentation is essential for automated diagnosis and treatment. Although recent advancements in deep learning have significantly improved segmentation accuracy, current models often face challenges in adaptability and generalization, particularly when processing multi-modal medical imaging data. These limitations stem from the substantial variations between imaging modalities and the inherent complexity of medical data. To address these challenges, we propose the Strategy-driven Interactive Segmentation Model (SISeg), built on SAM2, which enhances segmentation performance across various medical imaging modalities by integrating a selection engine. To mitigate memory bottlenecks and optimize prompt frame selection during the inference of 2D image sequences, we developed an automated system, the Adaptive Frame Selection Engine (AFSE). This system dynamically selects the optimal prompt frames without requiring extensive prior medical knowledge and enhances the interpretability of the model's inference process through an interactive feedback mechanism. We conducted extensive experiments on 10 datasets covering 7 representative medical imaging modalities, demonstrating the SISeg model's robust adaptability and generalization in multi-modal tasks. The project page and code will be available at: [URL].
Histopathology, the microscopic study of diseased tissue, is increasingly digitized, enabling improved visualization and streamlined workflows. An important task in histopathology is the segmentation of cells and glands, essential for determining shape and frequencies that can serve as indicators of disease. Deep learning tools are widely used in histopathology. However, variability in tissue appearance and cell morphology presents challenges for achieving reliable segmentation, often requiring manual correction to improve accuracy. This work introduces CellPilot, a framework that bridges the gap between automatic and interactive segmentation by providing initial automatic segmentation as well as guided interactive refinement. Our model was trained on over 675,000 masks of nine diverse cell and gland segmentation datasets, spanning 16 organs. CellPilot demonstrates superior performance compared to other interactive tools on three held-out histopathological datasets while enabling automatic segmentation. We make the model and a graphical user interface designed to assist practitioners in creating large-scale annotated datasets available as open-source, fostering the development of more robust and generalized diagnostic models.
Medical image segmentation data inherently contain uncertainty, often stemming from both imperfect image quality and variability in labeling preferences on ambiguous pixels, which depend on annotators' expertise and the clinical context of the annotations. For instance, a boundary pixel might be labeled as tumor in diagnosis to avoid under-assessment of severity, but as normal tissue in radiotherapy to prevent damage to sensitive structures. As segmentation preferences vary across downstream applications, it is often desirable for an image segmentation model to offer user-adaptable predictions rather than a fixed output. While prior uncertainty-aware and interactive methods offer adaptability, they are inefficient at test time: uncertainty-aware models require users to choose from numerous similar outputs, while interactive models demand significant user input through click or box prompts to refine segmentation. To address these challenges, we propose \textbf{SPA}, a segmentation framework that efficiently adapts to diverse test-time preferences with minimal human interaction. By presenting users a select few, distinct segmentation candidates that best capture uncertainties, it reduces clinician workload in reaching the preferred segmentation. To accommodate user preference, we introduce a probabilistic mechanism that leverages user feedback to adapt model's segmentation preference. The proposed framework is evaluated on a diverse range of medical image segmentation tasks: color fundus images, CT, and MRI. It demonstrates 1) a significant reduction in clinician time and effort compared with existing interactive segmentation approaches, 2) strong adaptability based on human feedback, and 3) state-of-the-art image segmentation performance across diverse modalities and semantic labels.