arXiv subjects

Yike Zhang

Publications and source records attributed to Yike Zhang.

At least 37 records · Page 2Linked to original sources

arXiv2025

Monocular Marker-free Patient-to-Image Intraoperative Registration for Cochlear Implant Surgery

This paper presents a novel method for monocular patient-to-image intraoperative registration, specifically designed to operate without any external hardware tracking equipment or fiducial point markers. Leveraging a synthetic microscopy surgical scene dataset with a wide range of transformations, our approach directly maps preoperative CT scans to 2D intraoperative surgical frames through a lightweight neural network for real-time cochlear implant surgery guidance via a zero-shot learning approach. Unlike traditional methods, our framework seamlessly integrates with monocular surgical microscopes, making it highly practical for clinical use without additional hardware dependencies and requirements. Our method estimates camera poses, which include a rotation matrix and a translation vector, by learning from the synthetic dataset, enabling accurate and efficient intraoperative registration. The proposed framework was evaluated on nine clinical cases using a patient-specific and cross-patient validation strategy. Our results suggest that our approach achieves clinically relevant accuracy in predicting 6D camera poses for registering 3D preoperative CT scans to 2D surgical scenes with an angular error within 10 degrees in most cases, while also addressing limitations of traditional methods, such as reliance on external tracking systems or fiducial markers.

cs.CV↗

arXiv2025

Vision6D: 3D-to-2D Interactive Visualization and Annotation Tool for 6D Pose Estimation

Accurate 6D pose estimation has gained more attention over the years for robotics-assisted tasks that require precise interaction with physical objects. This paper presents an interactive 3D-to-2D visualization and annotation tool to support the 6D pose estimation research community. To the best of our knowledge, the proposed work is the first tool that allows users to visualize and manipulate 3D objects interactively on a 2D real-world scene, along with a comprehensive user study. This system supports robust 6D camera pose annotation by providing both visual cues and spatial relationships to determine object position and orientation in various environments. The annotation feature in Vision6D is particularly helpful in scenarios where the transformation matrix between the camera and world objects is unknown, as it enables accurate annotation of these objects' poses using only the camera intrinsic matrix. This capability serves as a foundational step in developing and training advanced pose estimation models across various domains. We evaluate Vision6D's effectiveness by utilizing widely-used open-source pose estimation datasets Linemod and HANDAL through comparisons between the default ground-truth camera poses with manual annotations. A user study was performed to show that Vision6D generates accurate pose annotations via visual cues in an intuitive 3D user interface. This approach aims to bridge the gap between 2D scene projections and 3D scenes, offering an effective way for researchers and developers to solve 6D pose annotation related problems. The software is open-source and publicly available at https://github.com/InteractiveGL/vision6D.

cs.GR↗

arXiv2025

LLMs as Educational Analysts: Transforming Multimodal Data Traces into Actionable Reading Assessment Reports

Reading assessments are essential for enhancing students' comprehension, yet many EdTech applications focus mainly on outcome-based metrics, providing limited insights into student behavior and cognition. This study investigates the use of multimodal data sources -- including eye-tracking data, learning outcomes, assessment content, and teaching standards -- to derive meaningful reading insights. We employ unsupervised learning techniques to identify distinct reading behavior patterns, and then a large language model (LLM) synthesizes the derived information into actionable reports for educators, streamlining the interpretation process. LLM experts and human educators evaluate these reports for clarity, accuracy, relevance, and pedagogical usefulness. Our findings indicate that LLMs can effectively function as educational analysts, turning diverse data into teacher-friendly insights that are well-received by educators. While promising for automating insight generation, human oversight remains crucial to ensure reliability and fairness. This research advances human-centered AI in education, connecting data-driven analytics with practical classroom applications.

cs.CY↗

arXiv2025

Self-supervised Mamba-based Mastoidectomy Shape Prediction for Cochlear Implant Surgery

Cochlear Implant (CI) procedures require the insertion of an electrode array into the cochlea within the inner ear. To achieve this, mastoidectomy, a surgical procedure involving the removal of part of the mastoid region of the temporal bone using a high-speed drill provides safe access to the cochlea through the middle and inner ear. In this paper, we propose a novel Mamba-based method to synthesize the mastoidectomy volume using only preoperative Computed Tomography (CT) scans, where the mastoid remains intact. Our approach introduces a self-supervised learning framework designed to predict the mastoidectomy shape and reconstruct a 3D post-mastoidectomy surface directly from preoperative CT scans. This reconstruction aligns with intraoperative microscope views, enabling various downstream surgical applications. For training, we leverage postoperative CT scans to bypass manual data cleaning and labeling, even when the region removed during mastoidectomy is affected by challenges such as metal artifacts, low signal-to-noise ratio, or electrode wiring. Our method achieves a mean Dice score of 0.70 in estimating mastoidectomy regions, demonstrating its effectiveness for accurate and efficient surgical preoperative planning.

cs.CV↗

arXiv2025

Post-mastoidectomy Surface Multi-View Synthesis from a Single Microscopy Image

Cochlear Implant (CI) procedures involve performing an invasive mastoidectomy to insert an electrode array into the cochlea. In this paper, we introduce a novel pipeline that is capable of generating synthetic multi-view videos from a single CI microscope image. In our approach, we use a patient's pre-operative CT scan to predict the post-mastoidectomy surface using a method designed for this purpose. We manually align the surface with a selected microscope frame to obtain an accurate initial pose of the reconstructed CT mesh relative to the microscope. We then perform UV projection to transfer the colors from the frame to surface textures. Novel views of the textured surface can be used to generate a large dataset of synthetic frames with ground truth poses. We evaluated the quality of synthetic views rendered using Pytorch3D and PyVista. We found both rendering engines lead to similarly high-quality synthetic novel-view frames compared to ground truth with a structural similarity index for both methods averaging about 0.86. A large dataset of novel views with known poses is critical for ongoing training of a method to automatically estimate microscope pose for 2D to 3D registration with the pre-operative CT to facilitate augmented reality surgery. This dataset will empower various downstream tasks, such as integrating Augmented Reality (AR) in the OR, tracking surgical tools, and supporting other video analysis studies.

cs.CV↗

arXiv2025

SSDD-GAN: Single-Step Denoising Diffusion GAN for Cochlear Implant Surgical Scene Completion

Recent deep learning-based image completion methods, including both inpainting and outpainting, have demonstrated promising results in restoring corrupted images by effectively filling various missing regions. Among these, Generative Adversarial Networks (GANs) and Denoising Diffusion Probabilistic Models (DDPMs) have been employed as key generative image completion approaches, excelling in the field of generating high-quality restorations with reduced artifacts and improved fine details. In previous work, we developed a method aimed at synthesizing views from novel microscope positions for mastoidectomy surgeries; however, that approach did not have the ability to restore the surrounding surgical scene environment. In this paper, we propose an efficient method to complete the surgical scene of the synthetic postmastoidectomy dataset. Our approach leverages self-supervised learning on real surgical datasets to train a Single-Step Denoising Diffusion-GAN (SSDD-GAN), combining the advantages of diffusion models with the adversarial optimization of GANs for improved Structural Similarity results of 6%. The trained model is then directly applied to the synthetic postmastoidectomy dataset using a zero-shot approach, enabling the generation of realistic and complete surgical scenes without the need for explicit ground-truth labels from the synthetic postmastoidectomy dataset. This method addresses key limitations in previous work, offering a novel pathway for full surgical microscopy scene completion and enhancing the usability of the synthetic postmastoidectomy dataset in surgical preoperative planning and intraoperative navigation.

cs.CV↗

arXiv2025

Beyond Instructed Tasks: Recognizing In-the-Wild Reading Behaviors in the Classroom Using Eye Tracking

Understanding reader behaviors such as skimming, deep reading, and scanning is essential for improving educational instruction. While prior eye-tracking studies have trained models to recognize reading behaviors, they often rely on instructed reading tasks, which can alter natural behaviors and limit the applicability of these findings to in-the-wild settings. Additionally, there is a lack of clear definitions for reading behavior archetypes in the literature. We conducted a classroom study to address these issues by collecting instructed and in-the-wild reading data. We developed a mixed-method framework, including a human-driven theoretical model, statistical analyses, and an AI classifier, to differentiate reading behaviors based on their velocity, density, and sequentiality. Our lightweight 2D CNN achieved an F1 score of 0.8 for behavior recognition, providing a robust approach for understanding in-the-wild reading. This work advances our ability to provide detailed behavioral insights to educators, supporting more targeted and effective assessment and instruction.

cs.HC↗

arXiv2025

LUCY: Linguistic Understanding and Control Yielding Early Stage of Her

The film Her features Samantha, a sophisticated AI audio agent who is capable of understanding both linguistic and paralinguistic information in human speech and delivering real-time responses that are natural, informative and sensitive to emotional subtleties. Moving one step toward more sophisticated audio agent from recent advancement in end-to-end (E2E) speech systems, we propose LUCY, a E2E speech model that (1) senses and responds to user's emotion, (2) deliver responses in a succinct and natural style, and (3) use external tool to answer real-time inquiries. Experiment results show that LUCY is better at emotion control than peer models, generating emotional responses based on linguistic emotional instructions and responding to paralinguistic emotional cues. Lucy is also able to generate responses in a more natural style, as judged by external language models, without sacrificing much performance on general question answering. Finally, LUCY can leverage function calls to answer questions that are out of its knowledge scope.

cs.CL↗

arXiv2024

FocusLLM: Precise Understanding of Long Context by Dynamic Condensing

Empowering LLMs with the ability to precisely understand long contexts is crucial for many downstream applications. However, handling long contexts with conventional transformer architecture requires substantial training and inference resources. Existing context condensing methods cannot accurately understand the full context, as there is a considerable amount of information loss in the condensing process. To address these issues, we present FocusLLM, a framework designed to extend the fixed context length of any decoder-only LLM, allowing the model to focus on relevant information from very long sequences. FocusLLM first divides long text input into chunks based on the model's original context length. It then employs the dynamic condensing process to distill crucial information from each chunk. Ultimately, through the novel parallel decoding mechanism, FocusLLM can integrate the extracted information into its local context. FocusLLM stands out for great training efficiency and versatility: trained with an 8K input length and with much less training cost than previous methods, FocusLLM exhibits superior performance across downstream tasks and maintains strong language modeling ability when handling extensive long texts, even up to 400K tokens. Our code is available at https://github.com/leezythu/FocusLLM.

cs.CL↗

arXiv2024

Molecular Dynamics and Machine Learning Unlock Possibilities in Beauty Design -- A Perspective

Computational molecular design -- the endeavor to design molecules, with various missions, aided by machine learning and molecular dynamics approaches, has been widely applied to create valuable new molecular entities, from small molecule therapeutics to protein biologics. In the small data regime, physics-based approaches model the interaction between the molecule being designed and proteins of key physiological functions, providing structural insights into the mechanism. When abundant data has been collected, a quantitative structure-activity relationship (QSAR) can be more directly constructed from experimental data, from which machine learning can distill key insights to guide the design of the next round of experiment design. Machine learning methodologies can also facilitate physical modeling, from improving the accuracy of force fields and extending them to unseen chemical spaces, to more directly enhancing the sampling on the conformational spaces. We argue that these techniques are mature enough to be applied to not just extend the longevity of life, but the beauty it manifests. In this perspective, we review the current frontiers in the research \& development of skin care products, as well as the statistical and physical toolbox applicable to addressing the challenges in this industry. Feasible interdisciplinary research projects are proposed to harness the power of machine learning tools to design innovative, effective, and inexpensive skin care products.

physics.chem-ph↗

arXiv2024

Surgical Depth Anything: Depth Estimation for Surgical Scenes using Foundation Models

Monocular depth estimation is crucial for tracking and reconstruction algorithms, particularly in the context of surgical videos. However, the inherent challenges in directly obtaining ground truth depth maps during surgery render supervised learning approaches impractical. While many self-supervised methods based on Structure from Motion (SfM) have shown promising results, they rely heavily on high-quality camera motion and require optimization on a per-patient basis. These limitations can be mitigated by leveraging the current state-of-the-art foundational model for depth estimation, Depth Anything. However, when directly applied to surgical scenes, Depth Anything struggles with issues such as blurring, bleeding, and reflections, resulting in suboptimal performance. This paper presents a fine-tuning of the Depth Anything model specifically for the surgical domain, aiming to deliver more accurate pixel-wise depth maps tailored to the unique requirements and challenges of surgical environments. Our fine-tuning approach significantly improves the model's performance in surgical scenes, reducing errors related to blurring and reflections, and achieving a more reliable and precise depth estimation.

cs.CV↗

arXiv2024

The mass and redshift dependence of halo star clustering

We adopt the two point correlation function (2PCF) as a statistical tool to quantify the spatial clustering of halo stars, for galaxy systems spanning a wide range in host halo virial mass ($11.25<\log_{10}M_{200c}/\mathrm{M}_\odot<15$) and redshifts ($0<z<1.5$) from the IllustrisTNG simulations. Consistent with a previous study \cite[][Paper I]{2024ApJ...961..223Z}, we identify clear correlations between the strength of the 2PCF signals and galaxy formation redshifts, but over a much wider mass range. We find that such correlations are slightly stronger at higher redshifts, and get weakened with the increase of host halo mass. We demonstrate that the spatial clustering of halo stars is affected by two factors: 1) the clustering gets gradually weakened as time passes (phase mixing); 2) newly accreted stars at more recent times would increase the clustering. For more massive galaxy systems, they assemble late and the newly accreted stars would increase the clustering. The late assembly of massive systems may also help to explain the weaker correlations between the 2PCF signals and the galaxy formation redshifts in massive halos, as their 2PCFs are affected more by recently accreted stars, while formation redshift characterizes mass accretion on a much longer timescale. We find that the orbits of satellite galaxies in more massive halos maintain larger radial anisotropy, reflecting the more active accretion state of their hosts while also contributing to their stronger mass loss rates.

astro-ph.GA↗

arXiv2024

A Transcription Prompt-based Efficient Audio Large Language Model for Robust Speech Recognition

Audio-LLM introduces audio modality into a large language model (LLM) to enable a powerful LLM to recognize, understand, and generate audio. However, during speech recognition in noisy environments, we observed the presence of illusions and repetition issues in audio-LLM, leading to substitution and insertion errors. This paper proposes a transcription prompt-based audio-LLM by introducing an ASR expert as a transcription tokenizer and a hybrid Autoregressive (AR) Non-autoregressive (NAR) decoding approach to solve the above problems. Experiments on 10k-hour WenetSpeech Mandarin corpus show that our approach decreases 12.2% and 9.6% CER relatively on Test_Net and Test_Meeting evaluation sets compared with baseline. Notably, we reduce the decoding repetition rate on the evaluation set to zero, showing that the decoding repetition problem has been solved fundamentally.

cs.SD↗

arXiv2024

Zero-Shot Surgical Tool Segmentation in Monocular Video Using Segment Anything Model 2

The Segment Anything Model 2 (SAM 2) is the latest generation foundation model for image and video segmentation. Trained on the expansive Segment Anything Video (SA-V) dataset, which comprises 35.5 million masks across 50.9K videos, SAM 2 advances its predecessor's capabilities by supporting zero-shot segmentation through various prompts (e.g., points, boxes, and masks). Its robust zero-shot performance and efficient memory usage make SAM 2 particularly appealing for surgical tool segmentation in videos, especially given the scarcity of labeled data and the diversity of surgical procedures. In this study, we evaluate the zero-shot video segmentation performance of the SAM 2 model across different types of surgeries, including endoscopy and microscopy. We also assess its performance on videos featuring single and multiple tools of varying lengths to demonstrate SAM 2's applicability and effectiveness in the surgical domain. We found that: 1) SAM 2 demonstrates a strong capability for segmenting various surgical videos; 2) When new tools enter the scene, additional prompts are necessary to maintain segmentation accuracy; and 3) Specific challenges inherent to surgical videos can impact the robustness of SAM 2.

eess.IV↗

arXiv2024

3D Gaze Tracking for Studying Collaborative Interactions in Mixed-Reality Environments

This study presents a novel framework for 3D gaze tracking tailored for mixed-reality settings, aimed at enhancing joint attention and collaborative efforts in team-based scenarios. Conventional gaze tracking, often limited by monocular cameras and traditional eye-tracking apparatus, struggles with simultaneous data synchronization and analysis from multiple participants in group contexts. Our proposed framework leverages state-of-the-art computer vision and machine learning techniques to overcome these obstacles, enabling precise 3D gaze estimation without dependence on specialized hardware or complex data fusion. Utilizing facial recognition and deep learning, the framework achieves real-time, tracking of gaze patterns across several individuals, addressing common depth estimation errors, and ensuring spatial and identity consistency within the dataset. Empirical results demonstrate the accuracy and reliability of our method in group environments. This provides mechanisms for significant advances in behavior and interaction analysis in educational and professional training applications in dynamic and unstructured environments.

cs.CV↗

arXiv2024

A First Step in Using Machine Learning Methods to Enhance Interaction Analysis for Embodied Learning Environments

Investigating children's embodied learning in mixed-reality environments, where they collaboratively simulate scientific processes, requires analyzing complex multimodal data to interpret their learning and coordination behaviors. Learning scientists have developed Interaction Analysis (IA) methodologies for analyzing such data, but this requires researchers to watch hours of videos to extract and interpret students' learning patterns. Our study aims to simplify researchers' tasks, using Machine Learning and Multimodal Learning Analytics to support the IA processes. Our study combines machine learning algorithms and multimodal analyses to support and streamline researcher efforts in developing a comprehensive understanding of students' scientific engagement through their movements, gaze, and affective responses in a simulated scenario. To facilitate an effective researcher-AI partnership, we present an initial case study to determine the feasibility of visually representing students' states, actions, gaze, affect, and movement on a timeline. Our case study focuses on a specific science scenario where students learn about photosynthesis. The timeline allows us to investigate the alignment of critical learning moments identified by multimodal and interaction analysis, and uncover insights into students' temporal learning progressions.

cs.AI↗

arXiv2024

Monocular Microscope to CT Registration using Pose Estimation of the Incus for Augmented Reality Cochlear Implant Surgery

For those experiencing severe-to-profound sensorineural hearing loss, the cochlear implant (CI) is the preferred treatment. Augmented reality (AR) aided surgery can potentially improve CI procedures and hearing outcomes. Typically, AR solutions for image-guided surgery rely on optical tracking systems to register pre-operative planning information to the display so that hidden anatomy or other important information can be overlayed and co-registered with the view of the surgical scene. In this paper, our goal is to develop a method that permits direct 2D-to-3D registration of the microscope video to the pre-operative Computed Tomography (CT) scan without the need for external tracking equipment. Our proposed solution involves using surface mapping of a portion of the incus in surgical recordings and determining the pose of this structure relative to the surgical microscope by performing pose estimation via the perspective-n-point (PnP) algorithm. This registration can then be applied to pre-operative segmentations of other anatomy-of-interest, as well as the planned electrode insertion trajectory to co-register this information for the AR display. Our results demonstrate the accuracy with an average rotation error of less than 25 degrees and a translation error of less than 2 mm, 3 mm, and 0.55% for the x, y, and z axes, respectively. Our proposed method has the potential to be applicable and generalized to other surgical procedures while only needing a monocular microscope during intra-operation.

cs.CV↗

arXiv2024

SAMSNeRF: Segment Anything Model (SAM) Guides Dynamic Surgical Scene Reconstruction by Neural Radiance Field (NeRF)

The accurate reconstruction of surgical scenes from surgical videos is critical for various applications, including intraoperative navigation and image-guided robotic surgery automation. However, previous approaches, mainly relying on depth estimation, have limited effectiveness in reconstructing surgical scenes with moving surgical tools. To address this limitation and provide accurate 3D position prediction for surgical tools in all frames, we propose a novel approach called SAMSNeRF that combines Segment Anything Model (SAM) and Neural Radiance Field (NeRF) techniques. Our approach generates accurate segmentation masks of surgical tools using SAM, which guides the refinement of the dynamic surgical scene reconstruction by NeRF. Our experimental results on public endoscopy surgical videos demonstrate that our approach successfully reconstructs high-fidelity dynamic surgical scenes and accurately reflects the spatial information of surgical tools. Our proposed approach can significantly enhance surgical navigation and automation by providing surgeons with accurate 3D position information of surgical tools during surgery.The source code will be released soon.

cs.CV↗