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The Segment Anything Model (SAM) has established itself as a powerful zero-shot image segmentation model, employing interactive prompts such as points to generate masks. This paper presents SAM-PT, a method extending SAM's capability to tracking and segmenting anything in dynamic videos. SAM-PT leverages robust and sparse point selection and propagation techniques for mask generation, demonstrating that a SAM-based segmentation tracker can yield strong zero-shot performance across popular video object segmentation benchmarks, including DAVIS, YouTube-VOS, and MOSE. Compared to traditional object-centric mask propagation strategies, we uniquely use point propagation to exploit local structure information that is agnostic to object semantics. We highlight the merits of point-based tracking through direct evaluation on the zero-shot open-world Unidentified Video Objects (UVO) benchmark. To further enhance our approach, we utilize K-Medoids clustering for point initialization and track both positive and negative points to clearly distinguish the target object. We also employ multiple mask decoding passes for mask refinement and devise a point re-initialization strategy to improve tracking accuracy. Our code integrates different point trackers and video segmentation benchmarks and will be released at //github.com/SysCV/sam-pt.

Convolutional neural networks (CNNs) and Transformer-based models are being widely applied in medical image segmentation thanks to their ability to extract high-level features and capture important aspects of the image. However, there is often a trade-off between the need for high accuracy and the desire for low computational cost. A model with higher parameters can theoretically achieve better performance but also result in more computational complexity and higher memory usage, and thus is not practical to implement. In this paper, we look for a lightweight U-Net-based model which can remain the same or even achieve better performance, namely U-Lite. We design U-Lite based on the principle of Depthwise Separable Convolution so that the model can both leverage the strength of CNNs and reduce a remarkable number of computing parameters. Specifically, we propose Axial Depthwise Convolutions with kernels 7x7 in both the encoder and decoder to enlarge the model receptive field. To further improve the performance, we use several Axial Dilated Depthwise Convolutions with filters 3x3 for the bottleneck as one of our branches. Overall, U-Lite contains only 878K parameters, 35 times less than the traditional U-Net, and much more times less than other modern Transformer-based models. The proposed model cuts down a large amount of computational complexity while attaining an impressive performance on medical segmentation tasks compared to other state-of-the-art architectures. The code will be available at: //github.com/duong-db/U-Lite.

Segment anything model (SAM) developed by Meta AI Research has recently attracted significant attention. Trained on a large segmentation dataset of over 1 billion masks, SAM is capable of segmenting any object on a certain image. In the original SAM work, the authors turned to zero-short transfer tasks (like edge detection) for evaluating the performance of SAM. Recently, numerous works have attempted to investigate the performance of SAM in various scenarios to recognize and segment objects. Moreover, numerous projects have emerged to show the versatility of SAM as a foundation model by combining it with other models, like Grounding DINO, Stable Diffusion, ChatGPT, etc. With the relevant papers and projects increasing exponentially, it is challenging for the readers to catch up with the development of SAM. To this end, this work conducts the first yet comprehensive survey on SAM. This is an ongoing project and we intend to update the manuscript on a regular basis. Therefore, readers are welcome to contact us if they complete new works related to SAM so that we can include them in our next version.

Recent image restoration methods have produced significant advancements using deep learning. However, existing methods tend to treat the whole image as a single entity, failing to account for the distinct objects in the image that exhibit individual texture properties. Existing methods also typically generate a single result, which may not suit the preferences of different users. In this paper, we introduce the Restore Anything Pipeline (RAP), a novel interactive and per-object level image restoration approach that incorporates a controllable model to generate different results that users may choose from. RAP incorporates image segmentation through the recent Segment Anything Model (SAM) into a controllable image restoration model to create a user-friendly pipeline for several image restoration tasks. We demonstrate the versatility of RAP by applying it to three common image restoration tasks: image deblurring, image denoising, and JPEG artifact removal. Our experiments show that RAP produces superior visual results compared to state-of-the-art methods. RAP represents a promising direction for image restoration, providing users with greater control, and enabling image restoration at an object level.

We address the computational efficiency in solving the A-optimal Bayesian design of experiments problems for which the observational model is based on partial differential equations and, consequently, is computationally expensive to evaluate. A-optimality is a widely used and easy-to-interpret criterion for the Bayesian design of experiments. The criterion seeks the optimal experiment design by minimizing the expected conditional variance, also known as the expected posterior variance. This work presents a novel likelihood-free method for seeking the A-optimal design of experiments without sampling or integrating the Bayesian posterior distribution. In our approach, the expected conditional variance is obtained via the variance of the conditional expectation using the law of total variance, while we take advantage of the orthogonal projection property to approximate the conditional expectation. Through an asymptotic error estimation, we show that the intractability of the posterior does not affect the performance of our approach. We use an artificial neural network (ANN) to approximate the nonlinear conditional expectation to implement our method. For dealing with continuous experimental design parameters, we integrate the training process of the ANN into minimizing the expected conditional variance. Specifically, we propose a non-local approximation of the conditional expectation and apply transfer learning to reduce the number of evaluations of the observation model. Through numerical experiments, we demonstrate that our method significantly reduces the number of observational model evaluations compared with common importance sampling-based approaches. This reduction is crucial, considering the computationally expensive nature of these models.

Recently, the quality and performance of text-to-image generation significantly advanced due to the impressive results of diffusion models. However, text-to-image diffusion models still fail to generate high fidelity content with respect to the input prompt. One problem where text-to-diffusion models struggle is generating the exact number of objects specified in the text prompt. E.g. given a prompt "five apples and ten lemons on a table", diffusion-generated images usually contain the wrong number of objects. In this paper, we propose a method to improve diffusion models to focus on producing the correct object count given the input prompt. We adopt a counting network that performs reference-less class-agnostic counting for any given image. We calculate the gradients of the counting network and refine the predicted noise for each step. To handle multiple types of objects in the prompt, we use novel attention map guidance to obtain high-fidelity masks for each object. Finally, we guide the denoising process by the calculated gradients for each object. Through extensive experiments and evaluation, we demonstrate that our proposed guidance method greatly improves the fidelity of diffusion models to object count.

The Segment Anything Model (SAM) has recently emerged as a groundbreaking model in the field of image segmentation. Nevertheless, both the original SAM and its medical adaptations necessitate slice-by-slice annotations, which directly increase the annotation workload with the size of the dataset. We propose MedLSAM to address this issue, ensuring a constant annotation workload irrespective of dataset size and thereby simplifying the annotation process. Our model introduces a few-shot localization framework capable of localizing any target anatomical part within the body. To achieve this, we develop a Localize Anything Model for 3D Medical Images (MedLAM), utilizing two self-supervision tasks: relative distance regression (RDR) and multi-scale similarity (MSS) across a comprehensive dataset of 14,012 CT scans. We then establish a methodology for accurate segmentation by integrating MedLAM with SAM. By annotating only six extreme points across three directions on a few templates, our model can autonomously identify the target anatomical region on all data scheduled for annotation. This allows our framework to generate a 2D bounding box for every slice of the image, which are then leveraged by SAM to carry out segmentations. We conducted experiments on two 3D datasets covering 38 organs and found that MedLSAM matches the performance of SAM and its medical adaptations while requiring only minimal extreme point annotations for the entire dataset. Furthermore, MedLAM has the potential to be seamlessly integrated with future 3D SAM models, paving the way for enhanced performance. Our code is public at //github.com/openmedlab/MedLSAM.

Emerging foundation models in machine learning are models trained on vast amounts of data that have been shown to generalize well to new tasks. Often these models can be prompted with multi-modal inputs that range from natural language descriptions over images to point clouds. In this paper, we propose topological data analysis (TDA) guided prompt optimization for the Segment Anything Model (SAM) and show preliminary results in the biological image segmentation domain. Our approach replaces the standard grid search approach that is used in the original implementation and finds point locations based on their topological significance. Our results show that the TDA optimized point cloud is much better suited for finding small objects and massively reduces computational complexity despite the extra step in scenarios which require many segmentations.

Applying artificial intelligence techniques in medical imaging is one of the most promising areas in medicine. However, most of the recent success in this area highly relies on large amounts of carefully annotated data, whereas annotating medical images is a costly process. In this paper, we propose a novel method, called FocalMix, which, to the best of our knowledge, is the first to leverage recent advances in semi-supervised learning (SSL) for 3D medical image detection. We conducted extensive experiments on two widely used datasets for lung nodule detection, LUNA16 and NLST. Results show that our proposed SSL methods can achieve a substantial improvement of up to 17.3% over state-of-the-art supervised learning approaches with 400 unlabeled CT scans.

Recent advances in 3D fully convolutional networks (FCN) have made it feasible to produce dense voxel-wise predictions of volumetric images. In this work, we show that a multi-class 3D FCN trained on manually labeled CT scans of several anatomical structures (ranging from the large organs to thin vessels) can achieve competitive segmentation results, while avoiding the need for handcrafting features or training class-specific models. To this end, we propose a two-stage, coarse-to-fine approach that will first use a 3D FCN to roughly define a candidate region, which will then be used as input to a second 3D FCN. This reduces the number of voxels the second FCN has to classify to ~10% and allows it to focus on more detailed segmentation of the organs and vessels. We utilize training and validation sets consisting of 331 clinical CT images and test our models on a completely unseen data collection acquired at a different hospital that includes 150 CT scans, targeting three anatomical organs (liver, spleen, and pancreas). In challenging organs such as the pancreas, our cascaded approach improves the mean Dice score from 68.5 to 82.2%, achieving the highest reported average score on this dataset. We compare with a 2D FCN method on a separate dataset of 240 CT scans with 18 classes and achieve a significantly higher performance in small organs and vessels. Furthermore, we explore fine-tuning our models to different datasets. Our experiments illustrate the promise and robustness of current 3D FCN based semantic segmentation of medical images, achieving state-of-the-art results. Our code and trained models are available for download: //github.com/holgerroth/3Dunet_abdomen_cascade.