Structure-aware Fine-tuning for Code Pre-trained Models

Over the past few years, we have witnessed remarkable advancements in Code Pre-trained Models (CodePTMs). These models achieved excellent representation capabilities by designing structure-based pre-training tasks for code. However, how to enhance the absorption of structural knowledge when fine-tuning CodePTMs still remains a significant challenge. To fill this gap, in this paper, we present Structure-aware Fine-tuning (SAT), a novel structure-enhanced and plug-and-play fine-tuning method for CodePTMs. We first propose a structure loss to quantify the difference between the information learned by CodePTMs and the knowledge extracted from code structure. Specifically, we use the attention scores extracted from Transformer layer as the learned structural information, and the shortest path length between leaves in abstract syntax trees as the structural knowledge. Subsequently, multi-task learning is introduced to improve the performance of fine-tuning. Experiments conducted on four pre-trained models and two generation tasks demonstrate the effectiveness of our proposed method as a plug-and-play solution. Furthermore, we observed that SAT can benefit CodePTMs more with limited training data.

MARVIS: Motion & Geometry Aware Real and Virtual Image Segmentation

Tasks such as autonomous navigation, 3D reconstruction, and object recognition near the water surfaces are crucial in marine robotics applications. However, challenges arise due to dynamic disturbances, e.g., light reflections and refraction from the random air-water interface, irregular liquid flow, and similar factors, which can lead to potential failures in perception and navigation systems. Traditional computer vision algorithms struggle to differentiate between real and virtual image regions, significantly complicating tasks. A virtual image region is an apparent representation formed by the redirection of light rays, typically through reflection or refraction, creating the illusion of an object's presence without its actual physical location. This work proposes a novel approach for segmentation on real and virtual image regions, exploiting synthetic images combined with domain-invariant information, a Motion Entropy Kernel, and Epipolar Geometric Consistency. Our segmentation network does not need to be re-trained if the domain changes. We show this by deploying the same segmentation network in two different domains: simulation and the real world. By creating realistic synthetic images that mimic the complexities of the water surface, we provide fine-grained training data for our network (MARVIS) to discern between real and virtual images effectively. By motion & geometry-aware design choices and through comprehensive experimental analysis, we achieve state-of-the-art real-virtual image segmentation performance in unseen real world domain, achieving an IoU over 78% and a F1-Score over 86% while ensuring a small computational footprint. MARVIS offers over 43 FPS (8 FPS) inference rates on a single GPU (CPU core). Our code and dataset are available here https://github.com/jiayi-wu-umd/MARVIS.

A 3-D Full-Wave Model to Study the Impact of Soybean Components and Structure on L-Band Backscatter

Microwave remote sensing offers a powerful tool for monitoring the growth of short, dense vegetation like soybean. As the plants mature, changes in their biomass and 3-D structure impact the electromagnetic (EM) backscatter signal. This backscatter information holds valuable insights into crop health and yield, prompting the need for a comprehensive understanding of how structural and biophysical properties of soybeans as well as soil characteristics contribute to the overall backscatter signature. In this study, a full-wave model is developed for simulating L-band backscatter from soybean fields. Leveraging the ANSYS High-Frequency Structure Simulator (HFSS) framework, the model solves for the scattering of EM waves from realistic 3-D structural models of soybean, explicitly incorporating the interplant scattering effects. The model estimates of backscatter match well with the field observations from the SMAPVEX16-MicroWEX and SMAPVEX12, with average differences of 1-2 dB for co-pol and less than 4 dB for cross-pol. Furthermore, the model effectively replicates the temporal dynamics of crop backscatter throughout the growing season. The HFSS analysis revealed that the stems and pods are the primary contributors to HH-pol backscatter, while the branches contribute to VV-pol, and leaves impact the cross-pol signatures. In addition, a sensitivity study with 3-D bare soil surface resulted in an average variation of 8 dB in co- and cross-pol, even when the root mean square height and correlation length were held constant.

An automated framework for brain vessel centerline extraction from CTA images

Accurate automated extraction of brain vessel centerlines from CTA images plays an important role in diagnosis and therapy of cerebrovascular diseases, such as stroke. However, this task remains challenging due to the complex cerebrovascular structure, the varying imaging quality, and vessel pathology effects. In this paper, we consider automatic lumen segmentation generation without additional annotation effort by physicians and more effective use of the generated lumen segmentation for improved centerline extraction performance. We propose an automated framework for brain vessel centerline extraction from CTA images. The framework consists of four major components: (1) pre-processing approaches that register CTA images with a CT atlas and divide these images into input patches, (2) lumen segmentation generation from annotated vessel centerlines using graph cuts and robust kernel regression, (3) a dual-branch topology-aware UNet (DTUNet) that can effectively utilize the annotated vessel centerlines and the generated lumen segmentation through a topology-aware loss (TAL) and its dual-branch design, and (4) post-processing approaches that skeletonize the predicted lumen segmentation. Extensive experiments on a multi-center dataset demonstrate that the proposed framework outperforms state-of-the-art methods in terms of average symmetric centerline distance (ASCD) and overlap (OV). Subgroup analyses further suggest that the proposed framework holds promise in clinical applications for stroke treatment. Code is publicly available at https://github.com/Liusj-gh/DTUNet.

KNVQA: A Benchmark for evaluation knowledge-based VQA

Within the multimodal field, large vision-language models (LVLMs) have made significant progress due to their strong perception and reasoning capabilities in the visual and language systems. However, LVLMs are still plagued by the two critical issues of object hallucination and factual accuracy, which limit the practicality of LVLMs in different scenarios. Furthermore, previous evaluation methods focus more on the comprehension and reasoning of language content but lack a comprehensive evaluation of multimodal interactions, thereby resulting in potential limitations. To this end, we propose a novel KNVQA-Eval, which is devoted to knowledge-based VQA task evaluation to reflect the factuality of multimodal LVLMs. To ensure the robustness and scalability of the evaluation, we develop a new KNVQA dataset by incorporating human judgment and perception, aiming to evaluate the accuracy of standard answers relative to AI-generated answers in knowledge-based VQA. This work not only comprehensively evaluates the contextual information of LVLMs using reliable human annotations, but also further analyzes the fine-grained capabilities of current methods to reveal potential avenues for subsequent optimization of LVLMs-based estimators. Our proposed VQA-Eval and corresponding dataset KNVQA will facilitate the development of automatic evaluation tools with the advantages of low cost, privacy protection, and reproducibility. Our code will be released upon publication.

Multi-modal Fusion Technology based on Vehicle Information: A Survey

Multi-modal fusion is a basic task of autonomous driving system perception, which has attracted many scholars' interest in recent years. The current multi-modal fusion methods mainly focus on camera data and LiDAR data, but pay little attention to the kinematic information provided by the bottom sensors of the vehicle, such as acceleration, vehicle speed, angle of rotation. These information are not affected by complex external scenes, so it is more robust and reliable. In this paper, we introduce the existing application fields of vehicle bottom information and the research progress of related methods, as well as the multi-modal fusion methods based on bottom information. We also introduced the relevant information of the vehicle bottom information data set in detail to facilitate the research as soon as possible. In addition, new future ideas of multi-modal fusion technology for autonomous driving tasks are proposed to promote the further utilization of vehicle bottom information.

UDepth: Fast Monocular Depth Estimation for Visually-guided Underwater Robots

In this paper, we present a fast monocular depth estimation method for enabling 3D perception capabilities of low-cost underwater robots. We formulate a novel end-to-end deep visual learning pipeline named UDepth, which incorporates domain knowledge of image formation characteristics of natural underwater scenes. First, we adapt a new input space from raw RGB image space by exploiting underwater light attenuation prior, and then devise a least-squared formulation for coarse pixel-wise depth prediction. Subsequently, we extend this into a domain projection loss that guides the end-to-end learning of UDepth on over 9K RGB-D training samples. UDepth is designed with a computationally light MobileNetV2 backbone and a Transformer-based optimizer for ensuring fast inference rates on embedded systems. By domain-aware design choices and through comprehensive experimental analyses, we demonstrate that it is possible to achieve state-of-the-art depth estimation performance while ensuring a small computational footprint. Specifically, with 70%-80% less network parameters than existing benchmarks, UDepth achieves comparable and often better depth estimation performance. While the full model offers over 66 FPS (13 FPS) inference rates on a single GPU (CPU core), our domain projection for coarse depth prediction runs at 51.5 FPS rates on single-board NVIDIA Jetson TX2s. The inference pipelines are available at https://github.com/uf-robopi/UDepth.

Masked Video Modeling with Correlation-aware Contrastive Learning for Breast Cancer Diagnosis in Ultrasound

Breast cancer is one of the leading causes of cancer deaths in women. As the primary output of breast screening, breast ultrasound (US) video contains exclusive dynamic information for cancer diagnosis. However, training models for video analysis is non-trivial as it requires a voluminous dataset which is also expensive to annotate. Furthermore, the diagnosis of breast lesion faces unique challenges such as inter-class similarity and intra-class variation. In this paper, we propose a pioneering approach that directly utilizes US videos in computer-aided breast cancer diagnosis. It leverages masked video modeling as pretraning to reduce reliance on dataset size and detailed annotations. Moreover, a correlation-aware contrastive loss is developed to facilitate the identifying of the internal and external relationship between benign and malignant lesions. Experimental results show that our proposed approach achieved promising classification performance and can outperform other state-of-the-art methods.

Unsupervised single-particle deep clustering via statistical manifold learning

Motivation: Structural heterogeneity in single-particle cryo-electron microscopy (cryo-EM) data represents a major challenge for high-resolution structure determination. Unsupervised classification may serve as the first step in the assessment of structural heterogeneity. Traditional algorithms for unsupervised classification, such as K-means clustering and maximum likelihood optimization, may classify images into wrong classes with decreasing signal-to-noise-ratio (SNR) in the image data, yet demand increased cost in computation. Overcoming these limitations requires further development on clustering algorithms for high-performance cryo-EM data analysis. Results: Here we introduce a statistical manifold learning algorithm for unsupervised single-particle deep clustering. We show that statistical manifold learning improves classification accuracy by about 40% in the absence of input references for lower SNR data. Applications to several experimental datasets suggest that our deep clustering approach can detect subtle structural difference among classes. Through code optimization over the Intel high-performance computing (HPC) processors, our software implementation can generate thousands of reference-free class averages within several hours from hundreds of thousands of single-particle cryo-EM images, which allows significant improvement in ab initio 3D reconstruction resolution and quality. Our approach has been successfully applied in several structural determination projects. We expect that it provides a powerful computational tool in analyzing highly heterogeneous structural data and assisting in computational purification of single-particle datasets for high-resolution reconstruction.