Fruit tree image segmentation is an essential problem in automating a variety of agricultural tasks such as phenotyping, harvesting, spraying, and pruning. Many research papers have proposed a diverse spectrum of solutions suitable to specific tasks and environments. The review scope of this paper is confined to the front views of fruit trees and based on 158 relevant papers collected using a newly designed crawling review method. These papers are systematically reviewed based on a taxonomy that sequentially considers the method, image, task, and fruit. This taxonomy will assist readers to intuitively grasp the big picture of these research activities. Our review reveals that the most noticeable deficiency of the previous studies was the lack of a versatile dataset and segmentation model that could be applied to a variety of tasks and environments. Six important future research tasks are suggested, with the expectation that these will pave the way to building a versatile tree segmentation module.
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
Topological correctness, i.e., the preservation of structural integrity and specific characteristics of shape, is a fundamental requirement for medical imaging tasks, such as neuron or vessel segmentation. Despite the recent surge in topology-aware methods addressing this challenge, their real-world applicability is hindered by flawed benchmarking practices. In this paper, we identify critical pitfalls in model evaluation that include inadequate connectivity choices, overlooked topological artifacts in ground truth annotations, and inappropriate use of evaluation metrics. Through detailed empirical analysis, we uncover these issues' profound impact on the evaluation and ranking of segmentation methods. Drawing from our findings, we propose a set of actionable recommendations to establish fair and robust evaluation standards for topology-aware medical image segmentation methods.
Spiking Neural Networks (SNNs) have a low-power advantage but perform poorly in image segmentation tasks. The reason is that directly converting neural networks with complex architectural designs for segmentation tasks into spiking versions leads to performance degradation and non-convergence. To address this challenge, we first identify the modules in the architecture design that lead to the severe reduction in spike firing, make targeted improvements, and propose Spike2Former architecture. Second, we propose normalized integer spiking neurons to solve the training stability problem of SNNs with complex architectures. We set a new state-of-the-art for SNNs in various semantic segmentation datasets, with a significant improvement of +12.7% mIoU and 5.0 efficiency on ADE20K, +14.3% mIoU and 5.2 efficiency on VOC2012, and +9.1% mIoU and 6.6 efficiency on CityScapes.
The advances in the development of Facilitative Playbacks extracted from High-Speed videoendoscopic sequences of the vocal folds are hindered by a notable lack of publicly available datasets annotated with the semantic segmentations corresponding to the area of the glottal gap. This fact also limits the reproducibility and further exploration of existing research in this field. To address this gap, GIRAFE is a data repository designed to facilitate the development of advanced techniques for the semantic segmentation, analysis, and fast evaluation of High-Speed videoendoscopic sequences of the vocal folds. The repository includes 65 high-speed videoendoscopic recordings from a cohort of 50 patients (30 female, 20 male). The dataset comprises 15 recordings from healthy controls, 26 from patients with diagnosed voice disorders, and 24 with an unknown health condition. All of them were manually annotated by an expert, including the masks corresponding to the semantic segmentation of the glottal gap. The repository is also complemented with the automatic segmentation of the glottal area using different state-of-the-art approaches. This data set has already supported several studies, which demonstrates its usefulness for the development of new glottal gap segmentation algorithms from High-Speed-Videoendoscopic sequences to improve or create new Facilitative Playbacks. Despite these advances and others in the field, the broader challenge of performing an accurate and completely automatic semantic segmentation method of the glottal area remains open.
Existing skeleton-based human action classification models rely on well-trimmed action-specific skeleton videos for both training and testing, precluding their scalability to real-world applications where untrimmed videos exhibiting concatenated actions are predominant. To overcome this limitation, recently introduced skeleton action segmentation models involve un-trimmed skeleton videos into end-to-end training. The model is optimized to provide frame-wise predictions for any length of testing videos, simultaneously realizing action localization and classification. Yet, achieving such an improvement im-poses frame-wise annotated skeleton videos, which remains time-consuming in practice. This paper features a novel framework for skeleton-based action segmentation trained on short trimmed skeleton videos, but that can run on longer un-trimmed videos. The approach is implemented in three steps: Stitch, Contrast, and Segment. First, Stitch proposes a tem-poral skeleton stitching scheme that treats trimmed skeleton videos as elementary human motions that compose a semantic space and can be sampled to generate multi-action stitched se-quences. Contrast learns contrastive representations from stitched sequences with a novel discrimination pretext task that enables a skeleton encoder to learn meaningful action-temporal contexts to improve action segmentation. Finally, Segment relates the proposed method to action segmentation by learning a segmentation layer while handling particular da-ta availability. Experiments involve a trimmed source dataset and an untrimmed target dataset in an adaptation formulation for real-world skeleton-based human action segmentation to evaluate the effectiveness of the proposed method.
Head and neck tumors and metastatic lymph nodes are crucial for treatment planning and prognostic analysis. Accurate segmentation and quantitative analysis of these structures require pixel-level annotation, making automated segmentation techniques essential for the diagnosis and treatment of head and neck cancer. In this study, we investigated the effects of multiple strategies on the segmentation of pre-radiotherapy (pre-RT) and mid-radiotherapy (mid-RT) images. For the segmentation of pre-RT images, we utilized: 1) a fully supervised learning approach, and 2) the same approach enhanced with pre-trained weights and the MixUp data augmentation technique. For mid-RT images, we introduced a novel computational-friendly network architecture that features separate encoders for mid-RT images and registered pre-RT images with their labels. The mid-RT encoder branch integrates information from pre-RT images and labels progressively during the forward propagation. We selected the highest-performing model from each fold and used their predictions to create an ensemble average for inference. In the final test, our models achieved a segmentation performance of 82.38% for pre-RT and 72.53% for mid-RT on aggregated Dice Similarity Coefficient (DSC) as HiLab. Our code is available at https://github.com/WltyBY/HNTS-MRG2024_train_code.
The limited availability of labeled data has driven advancements in semi-supervised learning for medical image segmentation. Modern large-scale models tailored for general segmentation, such as the Segment Anything Model (SAM), have revealed robust generalization capabilities. However, applying these models directly to medical image segmentation still exposes performance degradation. In this paper, we propose a learnable prompting SAM-induced Knowledge distillation framework (KnowSAM) for semi-supervised medical image segmentation. Firstly, we propose a Multi-view Co-training (MC) strategy that employs two distinct sub-networks to employ a co-teaching paradigm, resulting in more robust outcomes. Secondly, we present a Learnable Prompt Strategy (LPS) to dynamically produce dense prompts and integrate an adapter to fine-tune SAM specifically for medical image segmentation tasks. Moreover, we propose SAM-induced Knowledge Distillation (SKD) to transfer useful knowledge from SAM to two sub-networks, enabling them to learn from SAM's predictions and alleviate the effects of incorrect pseudo-labels during training. Notably, the predictions generated by our subnets are used to produce mask prompts for SAM, facilitating effective inter-module information exchange. Extensive experimental results on various medical segmentation tasks demonstrate that our model outperforms the state-of-the-art semi-supervised segmentation approaches. Crucially, our SAM distillation framework can be seamlessly integrated into other semi-supervised segmentation methods to enhance performance. The code will be released upon acceptance of this manuscript at: https://github.com/taozh2017/KnowSAM
Medical image segmentation is crucial in modern medical image analysis, which can aid into diagnosis of various disease conditions. Recently, language-guided segmentation methods have shown promising results in automating image segmentation where text reports are incorporated as guidance. These text reports, containing image impressions and insights given by clinicians, provides auxiliary guidance. However, these methods neglect the inherent pattern gaps between the two distinct modalities, which leads to sub-optimal image-text feature fusion without proper cross-modality feature alignments. Contrastive alignments are widely used to associate image-text semantics in representation learning; however, it has not been exploited to bridge the pattern gaps in language-guided segmentation that relies on subtle low level image details to represent diseases. Existing contrastive alignment methods typically algin high-level global image semantics without involving low-level, localized target information, and therefore fails to explore fine-grained text guidance for language-guided segmentation. In this study, we propose a language-guided segmentation network with Target-informed Multi-level Contrastive Alignments (TMCA). TMCA enables target-informed cross-modality alignments and fine-grained text guidance to bridge the pattern gaps in language-guided segmentation. Specifically, we introduce: 1) a target-sensitive semantic distance module that enables granular image-text alignment modelling, and 2) a multi-level alignment strategy that directs text guidance on low-level image features. In addition, a language-guided target enhancement module is proposed to leverage the aligned text to redirect attention to focus on critical localized image features. Extensive experiments on 4 image-text datasets, involving 3 medical imaging modalities, demonstrated that our TMCA achieved superior performances.
The visual understanding are often approached from 3 granular levels: image, patch and pixel. Visual Tokenization, trained by self-supervised reconstructive learning, compresses visual data by codebook in patch-level with marginal information loss, but the visual tokens does not have semantic meaning. Open Vocabulary semantic segmentation benefits from the evolving Vision-Language models (VLMs) with strong image zero-shot capability, but transferring image-level to pixel-level understanding remains an imminent challenge. In this paper, we treat segmentation as tokenizing pixels and study a united perceptual and semantic token compression for all granular understanding and consequently facilitate open vocabulary semantic segmentation. Referring to the cognitive process of pretrained VLM where the low-level features are progressively composed to high-level semantics, we propose Feature Pyramid Tokenization (PAT) to cluster and represent multi-resolution feature by learnable codebooks and then decode them by joint learning pixel reconstruction and semantic segmentation. We design loosely coupled pixel and semantic learning branches. The pixel branch simulates bottom-up composition and top-down visualization of codebook tokens, while the semantic branch collectively fuse hierarchical codebooks as auxiliary segmentation guidance. Our experiments show that PAT enhances the semantic intuition of VLM feature pyramid, improves performance over the baseline segmentation model and achieves competitive performance on open vocabulary semantic segmentation benchmark. Our model is parameter-efficient for VLM integration and flexible for the independent tokenization. We hope to give inspiration not only on improving segmentation but also on semantic visual token utilization.
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.
Annotation of medical images, such as MRI and CT scans, is crucial for evaluating treatment efficacy and planning radiotherapy. However, the extensive workload of medical professionals limits their ability to annotate large image datasets, posing a bottleneck for AI applications in medical imaging. To address this, we propose In-context Cascade Segmentation (ICS), a novel method that minimizes annotation requirements while achieving high segmentation accuracy for sequential medical images. ICS builds on the UniverSeg framework, which performs few-shot segmentation using support images without additional training. By iteratively adding the inference results of each slice to the support set, ICS propagates information forward and backward through the sequence, ensuring inter-slice consistency. We evaluate the proposed method on the HVSMR dataset, which includes segmentation tasks for eight cardiac regions. Experimental results demonstrate that ICS significantly improves segmentation performance in complex anatomical regions, particularly in maintaining boundary consistency across slices, compared to baseline methods. The study also highlights the impact of the number and position of initial support slices on segmentation accuracy. ICS offers a promising solution for reducing annotation burdens while delivering robust segmentation results, paving the way for its broader adoption in clinical and research applications.
Recently, developing unified medical image segmentation models gains increasing attention, especially with the advent of the Segment Anything Model (SAM). SAM has shown promising binary segmentation performance in natural domains, however, transferring it to the medical domain remains challenging, as medical images often possess substantial inter-category overlaps. To address this, we propose the SEmantic-Guided SAM (SEG-SAM), a unified medical segmentation model that incorporates semantic medical knowledge to enhance medical segmentation performance. First, to avoid the potential conflict between binary and semantic predictions, we introduce a semantic-aware decoder independent of SAM's original decoder, specialized for both semantic segmentation on the prompted object and classification on unprompted objects in images. To further enhance the model's semantic understanding, we solicit key characteristics of medical categories from large language models and incorporate them into SEG-SAM through a text-to-vision semantic module, adaptively transferring the language information into the visual segmentation task. In the end, we introduce the cross-mask spatial alignment strategy to encourage greater overlap between the predicted masks from SEG-SAM's two decoders, thereby benefiting both predictions. Extensive experiments demonstrate that SEG-SAM outperforms state-of-the-art SAM-based methods in unified binary medical segmentation and task-specific methods in semantic medical segmentation, showcasing promising results and potential for broader medical applications.
Robustness and generalizability in medical image segmentation are often hindered by scarcity and limited diversity of training data, which stands in contrast to the variability encountered during inference. While conventional strategies -- such as domain-specific augmentation, specialized architectures, and tailored training procedures -- can alleviate these issues, they depend on the availability and reliability of domain knowledge. When such knowledge is unavailable, misleading, or improperly applied, performance may deteriorate. In response, we introduce a novel, domain-agnostic, add-on, and data-driven strategy inspired by image stacking in image denoising. Termed ``semantic stacking,'' our method estimates a denoised semantic representation that complements the conventional segmentation loss during training. This method does not depend on domain-specific assumptions, making it broadly applicable across diverse image modalities, model architectures, and augmentation techniques. Through extensive experiments, we validate the superiority of our approach in improving segmentation performance under diverse conditions. Code is available at https://github.com/ymp5078/Semantic-Stacking.
Automated segmentation of left ventricular cavity (LVC) in temporal cardiac image sequences (multiple time points) is a fundamental requirement for quantitative analysis of its structural and functional changes. Deep learning based methods for the segmentation of LVC are the state of the art; however, these methods are generally formulated to work on single time points, and fails to exploit the complementary information from the temporal image sequences that can aid in segmentation accuracy and consistency among the images across the time points. Furthermore, these segmentation methods perform poorly in segmenting the end-systole (ES) phase images, where the left ventricle deforms to the smallest irregular shape, and the boundary between the blood chamber and myocardium becomes inconspicuous. To overcome these limitations, we propose a new method to automatically segment temporal cardiac images where we introduce a spatial sequential (SS) network to learn the deformation and motion characteristics of the LVC in an unsupervised manner; these characteristics were then integrated with sequential context information derived from bi-directional learning (BL) where both chronological and reverse-chronological directions of the image sequence were used. Our experimental results on a cardiac computed tomography (CT) dataset demonstrated that our spatial-sequential network with bi-directional learning (SS-BL) method outperformed existing methods for LVC segmentation. Our method was also applied to MRI cardiac dataset and the results demonstrated the generalizability of our method.
Instance segmentation algorithms in remote sensing are typically based on conventional methods, limiting their application to seen scenarios and closed-set predictions. In this work, we propose a novel task called zero-shot remote sensing instance segmentation, aimed at identifying aerial objects that are absent from training data. Challenges arise when classifying aerial categories with high inter-class similarity and intra-class variance. Besides, the domain gap between vision-language models' pretraining datasets and remote sensing datasets hinders the zero-shot capabilities of the pretrained model when it is directly applied to remote sensing images. To address these challenges, we propose a $\textbf{Z}$ero-Sh$\textbf{o}$t $\textbf{R}$emote Sensing $\textbf{I}$nstance Segmentation framework, dubbed $\textbf{ZoRI}$. Our approach features a discrimination-enhanced classifier that uses refined textual embeddings to increase the awareness of class disparities. Instead of direct fine-tuning, we propose a knowledge-maintained adaptation strategy that decouples semantic-related information to preserve the pretrained vision-language alignment while adjusting features to capture remote sensing domain-specific visual cues. Additionally, we introduce a prior-injected prediction with cache bank of aerial visual prototypes to supplement the semantic richness of text embeddings and seamlessly integrate aerial representations, adapting to the remote sensing domain. We establish new experimental protocols and benchmarks, and extensive experiments convincingly demonstrate that ZoRI achieves the state-of-art performance on the zero-shot remote sensing instance segmentation task. Our code is available at https://github.com/HuangShiqi128/ZoRI.
Perception is a key building block of autonomously acting vision systems such as autonomous vehicles. It is crucial that these systems are able to understand their surroundings in order to operate safely and robustly. Additionally, autonomous systems deployed in unconstrained real-world scenarios must be able of dealing with novel situations and object that have never been seen before. In this article, we tackle the problem of open-world panoptic segmentation, i.e., the task of discovering new semantic categories and new object instances at test time, while enforcing consistency among the categories that we incrementally discover. We propose Con2MAV, an approach for open-world panoptic segmentation that extends our previous work, ContMAV, which was developed for open-world semantic segmentation. Through extensive experiments across multiple datasets, we show that our model achieves state-of-the-art results on open-world segmentation tasks, while still performing competitively on the known categories. We will open-source our implementation upon acceptance. Additionally, we propose PANIC (Panoptic ANomalies In Context), a benchmark for evaluating open-world panoptic segmentation in autonomous driving scenarios. This dataset, recorded with a multi-modal sensor suite mounted on a car, provides high-quality, pixel-wise annotations of anomalous objects at both semantic and instance level. Our dataset contains 800 images, with more than 50 unknown classes, i.e., classes that do not appear in the training set, and 4000 object instances, making it an extremely challenging dataset for open-world segmentation tasks in the autonomous driving scenario. We provide competitions for multiple open-world tasks on a hidden test set. Our dataset and competitions are available at https://www.ipb.uni-bonn.de/data/panic.
In recent years, semantic segmentation has flourished in various applications. However, the high computational cost remains a significant challenge that hinders its further adoption. The filter pruning method for structured network slimming offers a direct and effective solution for the reduction of segmentation networks. Nevertheless, we argue that most existing pruning methods, originally designed for image classification, overlook the fact that segmentation is a location-sensitive task, which consequently leads to their suboptimal performance when applied to segmentation networks. To address this issue, this paper proposes a novel approach, denoted as Spatial-aware Information Redundancy Filter Pruning~(SIRFP), which aims to reduce feature redundancy between channels. First, we formulate the pruning process as a maximum edge weight clique problem~(MEWCP) in graph theory, thereby minimizing the redundancy among the remaining features after pruning. Within this framework, we introduce a spatial-aware redundancy metric based on feature maps, thus endowing the pruning process with location sensitivity to better adapt to pruning segmentation networks. Additionally, based on the MEWCP, we propose a low computational complexity greedy strategy to solve this NP-hard problem, making it feasible and efficient for structured pruning. To validate the effectiveness of our method, we conducted extensive comparative experiments on various challenging datasets. The results demonstrate the superior performance of SIRFP for semantic segmentation tasks.
Event-based semantic segmentation has great potential in autonomous driving and robotics due to the advantages of event cameras, such as high dynamic range, low latency, and low power cost. Unfortunately, current artificial neural network (ANN)-based segmentation methods suffer from high computational demands, the requirements for image frames, and massive energy consumption, limiting their efficiency and application on resource-constrained edge/mobile platforms. To address these problems, we introduce SLTNet, a spike-driven lightweight transformer-based network designed for event-based semantic segmentation. Specifically, SLTNet is built on efficient spike-driven convolution blocks (SCBs) to extract rich semantic features while reducing the model's parameters. Then, to enhance the long-range contextural feature interaction, we propose novel spike-driven transformer blocks (STBs) with binary mask operations. Based on these basic blocks, SLTNet employs a high-efficiency single-branch architecture while maintaining the low energy consumption of the Spiking Neural Network (SNN). Finally, extensive experiments on DDD17 and DSEC-Semantic datasets demonstrate that SLTNet outperforms state-of-the-art (SOTA) SNN-based methods by at least 7.30% and 3.30% mIoU, respectively, with extremely 5.48x lower energy consumption and 1.14x faster inference speed.
Paramagnetic rim lesions (PRLs) are an emerging biomarker in multiple sclerosis (MS). Manual identification and rim segmentation of PRLs on quantitative susceptibility mapping (QSM) images are time-consuming. Deep learning-based QSM-RimNet can provide automated PRL detection, but this method does not provide rim segmentation for microglial density quantification and requires precise QSM lesion masks. The purpose of this study is to develop a U-Net-based QSM-RimDS method for joint PRL detection and rim segmentation using readily available T2-weighted (T2W) fluid-attenuated inversion recovery (FLAIR) lesion masks. Two expert readers performed PRL classification and rim segmentation as the reference. Dice similarity coefficient (DSC) was used to assess the agreement between rim segmentation obtained by QSM-RimDS and the manual expert segmentation. The PRL detection performances of QSM-RimDS and QSM-RimNet were evaluated using receiver operating characteristic (ROC) and precision-recall (PR) plots in a five-fold cross validation. A total of 260 PRLs (3.3\%) and 7720 non-PRLs (96.7\%) were identified by the readers. Compared to the expert rim segmentation, QSM-RimDS provided a mean DSC of 0.57 \pm 0.02 with moderate to high agreement (DSC \leq 0.5) in 73.8pm 5.7\% of PRLs over five folds. QSM-RimDS produced better and more consistent detection performance with a mean area under curve (AUC) of 0.754 \pm 0.037 vs. 0.514 \pm 0.121 by QSM-RimNet (46.7\% improvement) on PR plots, and 0.956 \pm 0.034 vs. 0.908 \pm 0.073 (5.3\% improvement) on ROC plots. In conclusion, QSM-RimDS improves PRL detection accuracy compared to QSM-RimNet and unlike QSM-RimNet can provide reasonably accurate rim segmentation.