Phenotype segmentation is pivotal in analysing visual features of living organisms, enhancing our understanding of their characteristics. In the context of oysters, meat quality assessment is paramount, focusing on shell, meat, gonad, and muscle components. Traditional manual inspection methods are time-consuming and subjective, prompting the adoption of machine vision technology for efficient and objective evaluation. We explore machine vision's capacity for segmenting oyster components, leading to the development of a multi-network ensemble approach with a global-local hierarchical attention mechanism. This approach integrates predictions from diverse models and addresses challenges posed by varying scales, ensuring robust instance segmentation across components. Finally, we provide a comprehensive evaluation of the proposed method's performance using different real-world datasets, highlighting its efficacy and robustness in enhancing oyster phenotype segmentation.
1) Objectives: This technical report presents a synthetic summary and the principal outcomes of the project R-Vessel-X ("Robust vascular network extraction and understanding within hepatic biomedical images") funded by the French Agence Nationale de la Recherche, and developed between 2019 and 2023. 2) Material and methods: We used datasets and tools publicly available such as IRCAD, Bullitt or VascuSynth toobtain real or synthetic angiographic images. The main contributions lie in the field of 3D angiographic image analysis: filtering, segmentation, modeling and simulation, with a specific focus on the liver. 3) Results: We paid a particular attention to open-source software diffusion of the developed methods, by means of 3D Slicer plugins for the liver anatomy segmentation (SlicerRVXLiverSegmentation) and vesselness filtering (Slicer-RVXVesselnessFilters), and an online demo for the generation of synthetic and realistic vessels in 2D and 3D (OpenCCO). 4) Conclusion: The R-Vessel-X project provided extensive research outcomes, covering various topics related to 3D angiographic image analysis, such as filtering, segmentation, modeling and simulation. We also developed open-source and free softwares so that the research communities in biomedical engineering can use these results in their future research.
4D panoptic LiDAR segmentation is essential for scene understanding in autonomous driving and robotics, combining semantic and instance segmentation with temporal consistency. Current methods, like 4D-PLS and 4D-STOP, use a tracking-by-detection methodology, employing deep learning networks to perform semantic and instance segmentation on each frame. To maintain temporal consistency, large-size instances detected in the current frame are compared and associated with instances within a temporal window that includes the current and preceding frames. However, their reliance on short-term instance detection, lack of motion estimation, and exclusion of small-sized instances lead to frequent identity switches and reduced tracking performance. We address these issues with the NextStop1 tracker, which integrates Kalman filter-based motion estimation, data association, and lifespan management, along with a tracklet state concept to improve prioritization. Evaluated using the LiDAR Segmentation and Tracking Quality (LSTQ) metric on the SemanticKITTI validation set, NextStop demonstrated enhanced tracking performance, particularly for small-sized objects like people and bicyclists, with fewer ID switches, earlier tracking initiation, and improved reliability in complex environments. The source code is available at https://github.com/AIROTAU/NextStop
3D semantic segmentation is one of the most crucial tasks in driving perception. The ability of a learning-based model to accurately perceive dense 3D surroundings often ensures the safe operation of autonomous vehicles. However, existing LiDAR-based 3D semantic segmentation databases consist of sequentially acquired LiDAR scans that are long-tailed and lack training diversity. In this report, we introduce MixSeg3D, a sophisticated combination of the strong point cloud segmentation model with advanced 3D data mixing strategies. Specifically, our approach integrates the MinkUNet family with LaserMix and PolarMix, two scene-scale data augmentation methods that blend LiDAR point clouds along the ego-scene's inclination and azimuth directions. Through empirical experiments, we demonstrate the superiority of MixSeg3D over the baseline and prior arts. Our team achieved 2nd place in the 3D semantic segmentation track of the 2024 Waymo Open Dataset Challenge.
This paper proposes a novel approach to few-shot semantic segmentation for machinery with multiple parts that exhibit spatial and hierarchical relationships. Our method integrates the foundation models CLIPSeg and Segment Anything Model (SAM) with the interest point detector SuperPoint and a graph convolutional network (GCN) to accurately segment machinery parts. By providing 1 to 25 annotated samples, our model, evaluated on a purely synthetic dataset depicting a truck-mounted loading crane, achieves effective segmentation across various levels of detail. Training times are kept under five minutes on consumer GPUs. The model demonstrates robust generalization to real data, achieving a qualitative synthetic-to-real generalization with a $J\&F$ score of 92.2 on real data using 10 synthetic support samples. When benchmarked on the DAVIS 2017 dataset, it achieves a $J\&F$ score of 71.5 in semi-supervised video segmentation with three support samples. This method's fast training times and effective generalization to real data make it a valuable tool for autonomous systems interacting with machinery and infrastructure, and illustrate the potential of combined and orchestrated foundation models for few-shot segmentation tasks.
AI-driven pulse thermography (PT) has become a crucial tool in non-destructive testing (NDT), enabling automatic detection of hidden anomalies in various industrial components. Current state-of-the-art techniques feed segmentation and depth estimation networks compressed PT sequences using either Principal Component Analysis (PCA) or Thermographic Signal Reconstruction (TSR). However, treating these two modalities independently constrains the performance of PT inspection models as these representations possess complementary semantic features. To address this limitation, this work proposes PT-Fusion, a multi-modal attention-based fusion network that fuses both PCA and TSR modalities for defect segmentation and depth estimation of subsurface defects in PT setups. PT-Fusion introduces novel feature fusion modules, Encoder Attention Fusion Gate (EAFG) and Attention Enhanced Decoding Block (AEDB), to fuse PCA and TSR features for enhanced segmentation and depth estimation of subsurface defects. In addition, a novel data augmentation technique is proposed based on random data sampling from thermographic sequences to alleviate the scarcity of PT datasets. The proposed method is benchmarked against state-of-the-art PT inspection models, including U-Net, attention U-Net, and 3D-CNN on the Universit\'e Laval IRT-PVC dataset. The results demonstrate that PT-Fusion outperforms the aforementioned models in defect segmentation and depth estimation accuracies with a margin of 10%.
Self-supervised Object Segmentation (SOS) aims to segment objects without any annotations. Under conditions of multi-camera inputs, the structural, textural and geometrical consistency among each view can be leveraged to achieve fine-grained object segmentation. To make better use of the above information, we propose Surface representation based Self-supervised Object Segmentation (Surface-SOS), a new framework to segment objects for each view by 3D surface representation from multi-view images of a scene. To model high-quality geometry surfaces for complex scenes, we design a novel scene representation scheme, which decomposes the scene into two complementary neural representation modules respectively with a Signed Distance Function (SDF). Moreover, Surface-SOS is able to refine single-view segmentation with multi-view unlabeled images, by introducing coarse segmentation masks as additional input. To the best of our knowledge, Surface-SOS is the first self-supervised approach that leverages neural surface representation to break the dependence on large amounts of annotated data and strong constraints. These constraints typically involve observing target objects against a static background or relying on temporal supervision in videos. Extensive experiments on standard benchmarks including LLFF, CO3D, BlendedMVS, TUM and several real-world scenes show that Surface-SOS always yields finer object masks than its NeRF-based counterparts and surpasses supervised single-view baselines remarkably. Code is available at: https://github.com/zhengxyun/Surface-SOS.
Multifractal analysis (MFA) provides a framework for the global characterization of image textures by describing the spatial fluctuations of their local regularity based on the multifractal spectrum. Several works have shown the interest of using MFA for the description of homogeneous textures in images. Nevertheless, natural images can be composed of several textures and, in turn, multifractal properties associated with those textures. This paper introduces a Bayesian multifractal segmentation method to model and segment multifractal textures by jointly estimating the multifractal parameters and labels on images. For this, a computationally and statistically efficient multifractal parameter estimation model for wavelet leaders is firstly developed, defining different multifractality parameters to different regions of an image. Then, a multiscale Potts Markov random field is introduced as a prior to model the inherent spatial and scale correlations between the labels of the wavelet leaders. A Gibbs sampling methodology is employed to draw samples from the posterior distribution of the parameters. Numerical experiments are conducted on synthetic multifractal images to evaluate the performance of the proposed segmentation approach. The proposed method achieves superior performance compared to traditional unsupervised segmentation techniques as well as modern deep learning-based approaches, showing its effectiveness for multifractal image segmentation.
Current approaches to dichotomous image segmentation (DIS) treat image matting and object segmentation as fundamentally different tasks. As improvements in image segmentation become increasingly challenging to achieve, combining image matting and grayscale segmentation techniques offers promising new directions for architectural innovation. Inspired by the possibility of aligning these two model tasks, we propose a new architectural approach for DIS called Confidence-Guided Matting (CGM). We created the first CGM model called Background Erase Network (BEN). BEN is comprised of two components: BEN Base for initial segmentation and BEN Refiner for confidence refinement. Our approach achieves substantial improvements over current state-of-the-art methods on the DIS5K validation dataset, demonstrating that matting-based refinement can significantly enhance segmentation quality. This work opens new possibilities for cross-pollination between matting and segmentation techniques in computer vision.
Accurate segmentation of the vocal tract from magnetic resonance imaging (MRI) data is essential for various voice and speech applications. Manual segmentation is time intensive and susceptible to errors. This study aimed to evaluate the efficacy of deep learning algorithms for automatic vocal tract segmentation from 3D MRI.
Image segmentation, a key task in computer vision, has traditionally relied on convolutional neural networks (CNNs), yet these models struggle with capturing complex spatial dependencies, objects with varying scales, need for manually crafted architecture components and contextual information. This paper explores the shortcomings of CNN-based models and the shift towards transformer architectures -to overcome those limitations. This work reviews state-of-the-art transformer-based segmentation models, addressing segmentation-specific challenges and their solutions. The paper discusses current challenges in transformer-based segmentation and outlines promising future trends, such as lightweight architectures and enhanced data efficiency. This survey serves as a guide for understanding the impact of transformers in advancing segmentation capabilities and overcoming the limitations of traditional models.
Prostate cancer (PCa) is the most prevalent cancer among men in the United States, accounting for nearly 300,000 cases, 29\% of all diagnoses and 35,000 total deaths in 2024. Traditional screening methods such as prostate-specific antigen (PSA) testing and magnetic resonance imaging (MRI) have been pivotal in diagnosis, but have faced limitations in specificity and generalizability. In this paper, we explore the potential of enhancing PCa gland segmentation using a novel MRI modality called synthetic correlated diffusion imaging (CDI$^s$). We employ several state-of-the-art deep learning models, including U-Net, SegResNet, Swin UNETR, Attention U-Net, and LightM-UNet, to segment prostate glands from a 200 CDI$^s$ patient cohort. We find that SegResNet achieved superior segmentation performance with a Dice-Sorensen coefficient (DSC) of $76.68 \pm 0.8$. Notably, the Attention U-Net, while slightly less accurate (DSC $74.82 \pm 2.0$), offered a favorable balance between accuracy and computational efficiency. Our findings demonstrate the potential of deep learning models in improving prostate gland segmentation using CDI$^s$ to enhance PCa management and clinical support.
Vision foundation models have achieved remarkable progress across various image analysis tasks. In the image segmentation task, foundation models like the Segment Anything Model (SAM) enable generalizable zero-shot segmentation through user-provided prompts. However, SAM primarily trained on natural images, lacks the domain-specific expertise of medical imaging. This limitation poses challenges when applying SAM to medical image segmentation, including the need for extensive fine-tuning on specialized medical datasets and a dependency on manual prompts, which are both labor-intensive and require intervention from medical experts. This work introduces the Few-shot Adaptation of Training-frEe SAM (FATE-SAM), a novel method designed to adapt the advanced Segment Anything Model 2 (SAM2) for 3D medical image segmentation. FATE-SAM reassembles pre-trained modules of SAM2 to enable few-shot adaptation, leveraging a small number of support examples to capture anatomical knowledge and perform prompt-free segmentation, without requiring model fine-tuning. To handle the volumetric nature of medical images, we incorporate a Volumetric Consistency mechanism that enhances spatial coherence across 3D slices. We evaluate FATE-SAM on multiple medical imaging datasets and compare it with supervised learning methods, zero-shot SAM approaches, and fine-tuned medical SAM methods. Results show that FATE-SAM delivers robust and accurate segmentation while eliminating the need for large annotated datasets and expert intervention. FATE-SAM provides a practical, efficient solution for medical image segmentation, making it more accessible for clinical applications.
Small object segmentation, like tumor segmentation, is a difficult and critical task in the field of medical image analysis. Although deep learning based methods have achieved promising performance, they are restricted to the use of binary segmentation mask. Inspired by the rigorous mapping between binary segmentation mask and distance map, we adopt distance map as a novel ground truth and employ a network to fulfill the computation of distance map. Specially, we propose a new segmentation framework that incorporates the existing binary segmentation network and a light weight regression network (dubbed as LR-Net). Thus, the LR-Net can convert the distance map computation into a regression task and leverage the rich information of distance maps. Additionally, we derive a shape-aware loss by employing distance maps as penalty map to infer the complete shape of an object. We evaluated our approach on MICCAI 2017 Liver Tumor Segmentation (LiTS) Challenge dataset and a clinical dataset. Experimental results show that our approach outperforms the classification-based methods as well as other existing state-of-the-arts.
Towards clinical interpretations, this paper presents a new ''output-with-confidence'' segmentation neural network with multiple input images and multiple output segmentation maps and their pairwise relations. A confidence score of the test image without ground-truth can be estimated from the difference among the estimated relation maps. We evaluate the method based on the widely used vanilla U-Net for segmentation and our new model is named Relation U-Net which can output segmentation maps of the input images as well as an estimated confidence score of the test image without ground-truth. Experimental results on four public datasets show that Relation U-Net can not only provide better accuracy than vanilla U-Net but also estimate a confidence score which is linearly correlated to the segmentation accuracy on test images.
Acquiring and annotating surgical data is often resource-intensive, ethical constraining, and requiring significant expert involvement. While generative AI models like text-to-image can alleviate data scarcity, incorporating spatial annotations, such as segmentation masks, is crucial for precision-driven surgical applications, simulation, and education. This study introduces both a novel task and method, SimGen, for Simultaneous Image and Mask Generation. SimGen is a diffusion model based on the DDPM framework and Residual U-Net, designed to jointly generate high-fidelity surgical images and their corresponding segmentation masks. The model leverages cross-correlation priors to capture dependencies between continuous image and discrete mask distributions. Additionally, a Canonical Fibonacci Lattice (CFL) is employed to enhance class separability and uniformity in the RGB space of the masks. SimGen delivers high-fidelity images and accurate segmentation masks, outperforming baselines across six public datasets assessed on image and semantic inception distance metrics. Ablation study shows that the CFL improves mask quality and spatial separation. Downstream experiments suggest generated image-mask pairs are usable if regulations limit human data release for research. This work offers a cost-effective solution for generating paired surgical images and complex labels, advancing surgical AI development by reducing the need for expensive manual annotations.
Existing methods for Video Reasoning Segmentation rely heavily on a single special token to represent the object in the keyframe or the entire video, inadequately capturing spatial complexity and inter-frame motion. To overcome these challenges, we propose VRS-HQ, an end-to-end video reasoning segmentation approach that leverages Multimodal Large Language Models (MLLMs) to inject rich spatiotemporal features into hierarchical tokens.Our key innovations include a Temporal Dynamic Aggregation (TDA) and a Token-driven Keyframe Selection (TKS). Specifically, we design frame-level <SEG> and temporal-level <TAK> tokens that utilize MLLM's autoregressive learning to effectively capture both local and global information. Subsequently, we apply a similarity-based weighted fusion and frame selection strategy, then utilize SAM2 to perform keyframe segmentation and propagation. To enhance keyframe localization accuracy, the TKS filters keyframes based on SAM2's occlusion scores during inference. VRS-HQ achieves state-of-the-art performance on ReVOS, surpassing VISA by 5.9%/12.5%/9.1% in J&F scores across the three subsets. These results highlight the strong temporal reasoning and segmentation capabilities of our method. Code and model weights will be released at VRS-HQ.
Semantic segmentation of remote sensing images is essential for various applications, including vegetation monitoring, disaster management, and urban planning. Previous studies have demonstrated that the self-attention mechanism (SA) is an effective approach for designing segmentation networks that can capture long-range pixel dependencies. SA enables the network to model the global dependencies between the input features, resulting in improved segmentation outcomes. However, the high density of attentional feature maps used in this mechanism causes exponential increases in computational complexity. Additionally, it introduces redundant information that negatively impacts the feature representation. Inspired by traditional threshold segmentation algorithms, we propose a novel threshold attention mechanism (TAM). This mechanism significantly reduces computational effort while also better modeling the correlation between different regions of the feature map. Based on TAM, we present a threshold attention network (TANet) for semantic segmentation. TANet consists of an attentional feature enhancement module (AFEM) for global feature enhancement of shallow features and a threshold attention pyramid pooling module (TAPP) for acquiring feature information at different scales for deep features. We have conducted extensive experiments on the ISPRS Vaihingen and Potsdam datasets. The results demonstrate the validity and superiority of our proposed TANet compared to the most state-of-the-art models.
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.
In this paper, we address the challenges in unsupervised video object segmentation (UVOS) by proposing an efficient algorithm, termed MTNet, which concurrently exploits motion and temporal cues. Unlike previous methods that focus solely on integrating appearance with motion or on modeling temporal relations, our method combines both aspects by integrating them within a unified framework. MTNet is devised by effectively merging appearance and motion features during the feature extraction process within encoders, promoting a more complementary representation. To capture the intricate long-range contextual dynamics and information embedded within videos, a temporal transformer module is introduced, facilitating efficacious inter-frame interactions throughout a video clip. Furthermore, we employ a cascade of decoders all feature levels across all feature levels to optimally exploit the derived features, aiming to generate increasingly precise segmentation masks. As a result, MTNet provides a strong and compact framework that explores both temporal and cross-modality knowledge to robustly localize and track the primary object accurately in various challenging scenarios efficiently. Extensive experiments across diverse benchmarks conclusively show that our method not only attains state-of-the-art performance in unsupervised video object segmentation but also delivers competitive results in video salient object detection. These findings highlight the method's robust versatility and its adeptness in adapting to a range of segmentation tasks. Source code is available on https://github.com/hy0523/MTNet.