arXiv subjects

Can Cui

Publications and source records attributed to Can Cui.

At least 73 records · Page 4Linked to original sources

arXiv2024

Glo-In-One-v2: Holistic Identification of Glomerular Cells, Tissues, and Lesions in Human and Mouse Histopathology

Segmenting glomerular intraglomerular tissue and lesions traditionally depends on detailed morphological evaluations by expert nephropathologists, a labor-intensive process susceptible to interobserver variability. Our group previously developed the Glo-In-One toolkit for integrated detection and segmentation of glomeruli. In this study, we leverage the Glo-In-One toolkit to version 2 with fine-grained segmentation capabilities, curating 14 distinct labels for tissue regions, cells, and lesions across a dataset of 23,529 annotated glomeruli across human and mouse histopathology data. To our knowledge, this dataset is among the largest of its kind to date.In this study, we present a single dynamic head deep learning architecture designed to segment 14 classes within partially labeled images of human and mouse pathology data. Our model was trained using a training set derived from 368 annotated kidney whole-slide images (WSIs) to identify 5 key intraglomerular tissues covering Bowman's capsule, glomerular tuft, mesangium, mesangial cells, and podocytes. Additionally, the network segments 9 glomerular lesion classes including adhesion, capsular drop, global sclerosis, hyalinosis, mesangial lysis, microaneurysm, nodular sclerosis, mesangial expansion, and segmental sclerosis. The glomerulus segmentation model achieved a decent performance compared with baselines, and achieved a 76.5 % average Dice Similarity Coefficient (DSC). Additional, transfer learning from rodent to human for glomerular lesion segmentation model has enhanced the average segmentation accuracy across different types of lesions by more than 3 %, as measured by Dice scores. The Glo-In-One-v2 model and trained weight have been made publicly available at https: //github.com/hrlblab/Glo-In-One_v2.

eess.IV↗

arXiv2024

On-Board Vision-Language Models for Personalized Autonomous Vehicle Motion Control: System Design and Real-World Validation

Personalized driving refers to an autonomous vehicle's ability to adapt its driving behavior or control strategies to match individual users' preferences and driving styles while maintaining safety and comfort standards. However, existing works either fail to capture every individual preference precisely or become computationally inefficient as the user base expands. Vision-Language Models (VLMs) offer promising solutions to this front through their natural language understanding and scene reasoning capabilities. In this work, we propose a lightweight yet effective on-board VLM framework that provides low-latency personalized driving performance while maintaining strong reasoning capabilities. Our solution incorporates a Retrieval-Augmented Generation (RAG)-based memory module that enables continuous learning of individual driving preferences through human feedback. Through comprehensive real-world vehicle deployment and experiments, our system has demonstrated the ability to provide safe, comfortable, and personalized driving experiences across various scenarios and significantly reduce takeover rates by up to 76.9%. To the best of our knowledge, this work represents the first end-to-end VLM-based motion control system in real-world autonomous vehicles.

cs.AI↗

arXiv2024

Towards Large Scale Atomic Manufacturing: Heterodyne Grating Interferometer with Zero Dead-Zone

This paper presents a novel heterodyne grating interferometer designed to meet the precise measurement requirements of next-generation lithography systems and large-scale atomic-level manufacturing. Utilizing a dual-frequency light source, the interferometer enables simultaneous measurement of three degrees of freedom. Key advancements include a compact zero Dead-Zone optical path configuration, significantly enhancing measurement reliability by mitigating the impact of light source fluctuations and air refractive index variations. A comprehensive crosstalk error analysis was conducted, resulting in a robust correction algorithm that reduces errors to below 5%. Performance testing of the prototype, size of 90mm*90mm*40mm, demonstrated exceptional resolution (0.25 nm in the XY-axis and 0.3 nm in the Z-axis), superior linearity (6.9e-5, 8.1e-5 and 16.2e-5 for the X, Y, and Z axes, respectively), high repeatability (0.8 nm/1000 nm for the three axes) and stability (20 nm for the XY-axis and 60 nm for the Z-axis over 1000 seconds). Comparative analysis with existing measurement sensors highlights the proposed method's significant advantages in integration, multidimensional capabilities, and is expected to be widely used in fields such as integrated circuits, atomic-level manufacturing and aerospace technology.

physics.optics↗

arXiv2024

ProFD: Prompt-Guided Feature Disentangling for Occluded Person Re-Identification

To address the occlusion issues in person Re-Identification (ReID) tasks, many methods have been proposed to extract part features by introducing external spatial information. However, due to missing part appearance information caused by occlusion and noisy spatial information from external model, these purely vision-based approaches fail to correctly learn the features of human body parts from limited training data and struggle in accurately locating body parts, ultimately leading to misaligned part features. To tackle these challenges, we propose a Prompt-guided Feature Disentangling method (ProFD), which leverages the rich pre-trained knowledge in the textual modality facilitate model to generate well-aligned part features. ProFD first designs part-specific prompts and utilizes noisy segmentation mask to preliminarily align visual and textual embedding, enabling the textual prompts to have spatial awareness. Furthermore, to alleviate the noise from external masks, ProFD adopts a hybrid-attention decoder, ensuring spatial and semantic consistency during the decoding process to minimize noise impact. Additionally, to avoid catastrophic forgetting, we employ a self-distillation strategy, retaining pre-trained knowledge of CLIP to mitigate over-fitting. Evaluation results on the Market1501, DukeMTMC-ReID, Occluded-Duke, Occluded-ReID, and P-DukeMTMC datasets demonstrate that ProFD achieves state-of-the-art results. Our project is available at: https://github.com/Cuixxx/ProFD.

cs.CV↗

arXiv2024

Vertical Shear Instability with Partially Reflecting Boundary Conditions

The vertical shear instability (VSI) is widely believed to be effective in driving turbulence in protoplanetary disks. Prior studies on VSI exclusively exploit the reflecting boundary conditions (BCs) at the disk surfaces. VSI depends critically on the boundary behaviors of waves at the disk surfaces. We extend earlier studies by performing a comprehensive numerical analysis of VSI with partially reflecting BCs for both the axisymmetric and non-axisymmetric unstable VSI modes. We find that the growth rates of the unstable modes diminish when the outgoing component of the flow is greater than the incoming one for high-order body modes. When the outgoing wave component dominates, the growth of VSI is notably suppressed. We find that the non-axisymmetric modes are unstable and they grow at a rate that decreases with the azimuthal wavenumber. The different BCs at the lower and upper disk surfaces naturally lead to non-symmetric modes relative to the disk midplane. The potential implications of our studies for further understanding planetary formation and evolution in protoplanetary disks (PPDs) are also briefly discussed.

astro-ph.EP↗

arXiv2024

Improving Speaker Assignment in Speaker-Attributed ASR for Real Meeting Applications

Past studies on end-to-end meeting transcription have focused on model architecture and have mostly been evaluated on simulated meeting data. We present a novel study aiming to optimize the use of a Speaker-Attributed ASR (SA-ASR) system in real-life scenarios, such as the AMI meeting corpus, for improved speaker assignment of speech segments. First, we propose a pipeline tailored to real-life applications involving Voice Activity Detection (VAD), Speaker Diarization (SD), and SA-ASR. Second, we advocate using VAD output segments to fine-tune the SA-ASR model, considering that it is also applied to VAD segments during test, and show that this results in a relative reduction of Speaker Error Rate (SER) up to 28%. Finally, we explore strategies to enhance the extraction of the speaker embedding templates used as inputs by the SA-ASR system. We show that extracting them from SD output rather than annotated speaker segments results in a relative SER reduction up to 20%.

cs.CL↗

arXiv2024

Large-scale cervical precancerous screening via AI-assisted cytology whole slide image analysis

Cervical Cancer continues to be the leading gynecological malignancy, posing a persistent threat to women's health on a global scale. Early screening via cytology Whole Slide Image (WSI) diagnosis is critical to prevent this Cancer progression and improve survival rate, but pathologist's single test suffers inevitable false negative due to the immense number of cells that need to be reviewed within a WSI. Though computer-aided automated diagnostic models can serve as strong complement for pathologists, their effectiveness is hampered by the paucity of extensive and detailed annotations, coupled with the limited interpretability and robustness. These factors significantly hinder their practical applicability and reliability in clinical settings. To tackle these challenges, we develop an AI approach, which is a Scalable Technology for Robust and Interpretable Diagnosis built on Extensive data (STRIDE) of cervical cytology. STRIDE addresses the bottleneck of limited annotations by integrating patient-level labels with a small portion of cell-level labels through an end-to-end training strategy, facilitating scalable learning across extensive datasets. To further improve the robustness to real-world domain shifts of cytology slide-making and imaging, STRIDE employs color adversarial samples training that mimic staining and imaging variations. Lastly, to achieve pathologist-level interpretability for the trustworthiness in clinical settings, STRIDE can generate explanatory textual descriptions that simulates pathologists' diagnostic processes by cell image feature and textual description alignment. Conducting extensive experiments and evaluations in 183 medical centers with a dataset of 341,889 WSIs and 0.1 billion cells from cervical cytology patients, STRIDE has demonstrated a remarkable superiority over previous state-of-the-art techniques.

cs.CV↗

arXiv2024

PFPs: Prompt-guided Flexible Pathological Segmentation for Diverse Potential Outcomes Using Large Vision and Language Models

The Vision Foundation Model has recently gained attention in medical image analysis. Its zero-shot learning capabilities accelerate AI deployment and enhance the generalizability of clinical applications. However, segmenting pathological images presents a special focus on the flexibility of segmentation targets. For instance, a single click on a Whole Slide Image (WSI) could signify a cell, a functional unit, or layers, adding layers of complexity to the segmentation tasks. Current models primarily predict potential outcomes but lack the flexibility needed for physician input. In this paper, we explore the potential of enhancing segmentation model flexibility by introducing various task prompts through a Large Language Model (LLM) alongside traditional task tokens. Our contribution is in four-fold: (1) we construct a computational-efficient pipeline that uses finetuned language prompts to guide flexible multi-class segmentation; (2) We compare segmentation performance with fixed prompts against free-text; (3) We design a multi-task kidney pathology segmentation dataset and the corresponding various free-text prompts; and (4) We evaluate our approach on the kidney pathology dataset, assessing its capacity to new cases during inference.

cs.CV↗

arXiv2024

HoloHisto: End-to-end Gigapixel WSI Segmentation with 4K Resolution Sequential Tokenization

In digital pathology, the traditional method for deep learning-based image segmentation typically involves a two-stage process: initially segmenting high-resolution whole slide images (WSI) into smaller patches (e.g., 256x256, 512x512, 1024x1024) and subsequently reconstructing them to their original scale. This method often struggles to capture the complex details and vast scope of WSIs. In this paper, we propose the holistic histopathology (HoloHisto) segmentation method to achieve end-to-end segmentation on gigapixel WSIs, whose maximum resolution is above 80,000$\times$70,000 pixels. HoloHisto fundamentally shifts the paradigm of WSI segmentation to an end-to-end learning fashion with 1) a large (4K) resolution base patch for elevated visual information inclusion and efficient processing, and 2) a novel sequential tokenization mechanism to properly model the contextual relationships and efficiently model the rich information from the 4K input. To our best knowledge, HoloHisto presents the first holistic approach for gigapixel resolution WSI segmentation, supporting direct I/O of complete WSI and their corresponding gigapixel masks. Under the HoloHisto platform, we unveil a random 4K sampler that transcends ultra-high resolution, delivering 31 and 10 times more pixels than standard 2D and 3D patches, respectively, for advancing computational capabilities. To facilitate efficient 4K resolution dense prediction, we leverage sequential tokenization, utilizing a pre-trained image tokenizer to group image features into a discrete token grid. To assess the performance, our team curated a new kidney pathology image segmentation (KPIs) dataset with WSI-level glomeruli segmentation from whole mouse kidneys. From the results, HoloHisto-4K delivers remarkable performance gains over previous state-of-the-art models.

eess.IV↗

arXiv2024

HATs: Hierarchical Adaptive Taxonomy Segmentation for Panoramic Pathology Image Analysis

Panoramic image segmentation in computational pathology presents a remarkable challenge due to the morphologically complex and variably scaled anatomy. For instance, the intricate organization in kidney pathology spans multiple layers, from regions like the cortex and medulla to functional units such as glomeruli, tubules, and vessels, down to various cell types. In this paper, we propose a novel Hierarchical Adaptive Taxonomy Segmentation (HATs) method, which is designed to thoroughly segment panoramic views of kidney structures by leveraging detailed anatomical insights. Our approach entails (1) the innovative HATs technique which translates spatial relationships among 15 distinct object classes into a versatile "plug-and-play" loss function that spans across regions, functional units, and cells, (2) the incorporation of anatomical hierarchies and scale considerations into a unified simple matrix representation for all panoramic entities, (3) the adoption of the latest AI foundation model (EfficientSAM) as a feature extraction tool to boost the model's adaptability, yet eliminating the need for manual prompt generation in conventional segment anything model (SAM). Experimental findings demonstrate that the HATs method offers an efficient and effective strategy for integrating clinical insights and imaging precedents into a unified segmentation model across more than 15 categories. The official implementation is publicly available at https://github.com/hrlblab/HATs.

eess.IV↗

arXiv2024

Variational Monte Carlo Study of the Doped $t$-$J$ Model on Honeycomb Lattice

The ground state of the bipartite $t$-$J$ model must satisfy a specific sign structure, based on which the single-hole and two-hole ground state $Ans\ddot{a}tze$ on honeycomb lattice are constructed and studied by a variational Monte Carlo (VMC) method. The VMC results are in good agreement with the exact diagonalization (ED) calculation. For the single-hole case, the degenerate ground states are characterized by quantum numbers of a spin-1/2 and an orbital angular momentum $L_z=\pm 2$. The latter is associated with the emergent chiral spin/hole currents mutually surrounding the hole/spin-1/2 as a composite object or ``twisted hole''. A vanishing quasiparticle spectral weight is shown in the large-sample limit. In the two-hole ground state, the holes form a spin-singlet pairing with $d$+$id$ symmetry in the Cooper channel, but are of $s$-wave symmetry as a tightly bound pair of the ``twisted holes''. Such a pairing mechanism of dichotomy can be attributed to eliminating the local spin currents which has nothing to do with the long-range antiferromagnetic correlation. Superconducting ground state at finite doping is briefly discussed in terms of the tightly bound hole pairs as the building blocks.

cond-mat.str-el↗

arXiv2024

Kinematic Model of Magnetic Domain Wall Motion for Fast, High-Accuracy Simulations

Domain wall (DW) devices have garnered recent interest for diverse applications including memory, logic, and neuromorphic primitives; fast, accurate device models are therefore imperative for large-scale system design and verification. Extant DW motion models are sub-optimal for large-scale system design either over-consuming compute resources with physics-heavy equations or oversimplifying the physics, drastically reducing model accuracy. We propose a DW model inspired by the phenomenological similarities between motions of a DW and a classical object being acted on by forces like air resistance or static friction. Our proposed phenomenological model predicts DW motion within 1.2% on average compared with micromagnetic simulations that are 400 times slower. Additionally our model is seven times faster than extant collective coordinate models and 14 times more accurate than extant hyper-reduced models making it an essential tool for large-scale DW circuit design and simulation. The model is publicly posted along with scripts that automatically extract model parameters from user-provided simulation or experimental data to extend the model to alternative micromagnetic parameters.

cs.ET↗

arXiv2024

mTREE: Multi-Level Text-Guided Representation End-to-End Learning for Whole Slide Image Analysis

Multi-modal learning adeptly integrates visual and textual data, but its application to histopathology image and text analysis remains challenging, particularly with large, high-resolution images like gigapixel Whole Slide Images (WSIs). Current methods typically rely on manual region labeling or multi-stage learning to assemble local representations (e.g., patch-level) into global features (e.g., slide-level). However, there is no effective way to integrate multi-scale image representations with text data in a seamless end-to-end process. In this study, we introduce Multi-Level Text-Guided Representation End-to-End Learning (mTREE). This novel text-guided approach effectively captures multi-scale WSI representations by utilizing information from accompanying textual pathology information. mTREE innovatively combines - the localization of key areas (global-to-local) and the development of a WSI-level image-text representation (local-to-global) - into a unified, end-to-end learning framework. In this model, textual information serves a dual purpose: firstly, functioning as an attention map to accurately identify key areas, and secondly, acting as a conduit for integrating textual features into the comprehensive representation of the image. Our study demonstrates the effectiveness of mTREE through quantitative analyses in two image-related tasks: classification and survival prediction, showcasing its remarkable superiority over baselines.

cs.CV↗

arXiv2024

Data-driven Nucleus Subclassification on Colon H&E using Style-transferred Digital Pathology

Understanding the way cells communicate, co-locate, and interrelate is essential to furthering our understanding of how the body functions. H&E is widely available, however, cell subtyping often requires expert knowledge and the use of specialized stains. To reduce the annotation burden, AI has been proposed for the classification of cells on H&E. For example, the recent Colon Nucleus Identification and Classification (CoNIC) Challenge focused on labeling 6 cell types on H&E of the colon. However, the CoNIC Challenge was unable to classify epithelial subtypes (progenitor, enteroendocrine, goblet), lymphocyte subtypes (B, helper T, cytotoxic T), and connective subtypes (fibroblasts). We use inter-modality learning to label previously un-labelable cell types on H&E. We take advantage of multiplexed immunofluorescence (MxIF) histology to label 14 cell subclasses. We performed style transfer on the same MxIF tissues to synthesize realistic virtual H&E which we paired with the MxIF-derived cell subclassification labels. We evaluated the efficacy of using a supervised learning scheme where the input was realistic-quality virtual H&E and the labels were MxIF-derived cell subclasses. We assessed our model on private virtual H&E and public real H&E. On virtual H&E, we were able to classify helper T cells and epithelial progenitors with positive predictive values of $0.34 \pm 0.15$ (prevalence $0.03 \pm 0.01$) and $0.47 \pm 0.1$ (prevalence $0.07 \pm 0.02$) respectively, when using ground truth centroid information. On real H&E we could classify helper T cells and epithelial progenitors with upper bound positive predictive values of $0.43 \pm 0.03$ (parent class prevalence 0.21) and $0.94 \pm 0.02$ (parent class prevalence 0.49) when using ground truth centroid information. This is the first work to provide cell type classification for helper T and epithelial progenitor nuclei on H&E.

eess.IV↗

arXiv2024

Personalized Autonomous Driving with Large Language Models: Field Experiments

Integrating large language models (LLMs) in autonomous vehicles enables conversation with AI systems to drive the vehicle. However, it also emphasizes the requirement for such systems to comprehend commands accurately and achieve higher-level personalization to adapt to the preferences of drivers or passengers over a more extended period. In this paper, we introduce an LLM-based framework, Talk2Drive, capable of translating natural verbal commands into executable controls and learning to satisfy personal preferences for safety, efficiency, and comfort with a proposed memory module. This is the first-of-its-kind multi-scenario field experiment that deploys LLMs on a real-world autonomous vehicle. Experiments showcase that the proposed system can comprehend human intentions at different intuition levels, ranging from direct commands like "can you drive faster" to indirect commands like "I am really in a hurry now". Additionally, we use the takeover rate to quantify the trust of human drivers in the LLM-based autonomous driving system, where Talk2Drive significantly reduces the takeover rate in highway, intersection, and parking scenarios. We also validate that the proposed memory module considers personalized preferences and further reduces the takeover rate by up to 65.2% compared with those without a memory module. The experiment video can be watched at https://www.youtube.com/watch?v=4BWsfPaq1Ro

cs.AI↗

arXiv2024

GeRM: A Generalist Robotic Model with Mixture-of-experts for Quadruped Robot

Multi-task robot learning holds significant importance in tackling diverse and complex scenarios. However, current approaches are hindered by performance issues and difficulties in collecting training datasets. In this paper, we propose GeRM (Generalist Robotic Model). We utilize offline reinforcement learning to optimize data utilization strategies to learn from both demonstrations and sub-optimal data, thus surpassing the limitations of human demonstrations. Thereafter, we employ a transformer-based VLA network to process multi-modal inputs and output actions. By introducing the Mixture-of-Experts structure, GeRM allows faster inference speed with higher whole model capacity, and thus resolves the issue of limited RL parameters, enhancing model performance in multi-task learning while controlling computational costs. Through a series of experiments, we demonstrate that GeRM outperforms other methods across all tasks, while also validating its efficiency in both training and inference processes. Additionally, we uncover its potential to acquire emergent skills. Additionally, we contribute the QUARD-Auto dataset, collected automatically to support our training approach and foster advancements in multi-task quadruped robot learning. This work presents a new paradigm for reducing the cost of collecting robot data and driving progress in the multi-task learning community. You can reach our project and video through the link: https://songwxuan.github.io/GeRM/ .

cs.RO↗

arXiv2024

LaMPilot: An Open Benchmark Dataset for Autonomous Driving with Language Model Programs

Autonomous driving (AD) has made significant strides in recent years. However, existing frameworks struggle to interpret and execute spontaneous user instructions, such as "overtake the car ahead." Large Language Models (LLMs) have demonstrated impressive reasoning capabilities showing potential to bridge this gap. In this paper, we present LaMPilot, a novel framework that integrates LLMs into AD systems, enabling them to follow user instructions by generating code that leverages established functional primitives. We also introduce LaMPilot-Bench, the first benchmark dataset specifically designed to quantitatively evaluate the efficacy of language model programs in AD. Adopting the LaMPilot framework, we conduct extensive experiments to assess the performance of off-the-shelf LLMs on LaMPilot-Bench. Our results demonstrate the potential of LLMs in handling diverse driving scenarios and following user instructions in driving. To facilitate further research in this area, we release our code and data at https://github.com/PurdueDigitalTwin/LaMPilot.

cs.CL↗

arXiv2024

Quantifying Uncertainty in Motion Prediction with Variational Bayesian Mixture

Safety and robustness are crucial factors in developing trustworthy autonomous vehicles. One essential aspect of addressing these factors is to equip vehicles with the capability to predict future trajectories for all moving objects in the surroundings and quantify prediction uncertainties. In this paper, we propose the Sequential Neural Variational Agent (SeNeVA), a generative model that describes the distribution of future trajectories for a single moving object. Our approach can distinguish Out-of-Distribution data while quantifying uncertainty and achieving competitive performance compared to state-of-the-art methods on the Argoverse 2 and INTERACTION datasets. Specifically, a 0.446 meters minimum Final Displacement Error, a 0.203 meters minimum Average Displacement Error, and a 5.35% Miss Rate are achieved on the INTERACTION test set. Extensive qualitative and quantitative analysis is also provided to evaluate the proposed model. Our open-source code is available at https://github.com/PurdueDigitalTwin/seneva.

cs.CV↗