pwc-archive/papers-with-abstracts huggingface dataset:
Learn Single-horizon Disease Evolution for Predictive Generation of Post-therapeutic Neovascular Age-related Macular Degeneration
Authors: Yuhan Zhang, Kun Huang, Mingchao Li, Songtao Yuan, Qiang Chen
Date: 2023-08-12 00:00:00
Tasks: Disease Prediction

Most of the existing disease prediction methods in the field of medical image processing fall into two classes, namely image-to-category predictions and image-to-parameter predictions. Few works have focused on image-to-image predictions. Different from multi-horizon predictions in other fields, ophthalmologists prefer to show more confidence in single-horizon predictions due to the low tolerance of predictive risk. We propose a single-horizon disease evolution network (SHENet) to predictively generate post-therapeutic SD-OCT images by inputting pre-therapeutic SD-OCT images with neovascular age-related macular degeneration (nAMD). In SHENet, a feature encoder converts the input SD-OCT images to deep features, then a graph evolution module predicts the process of disease evolution in high-dimensional latent space and outputs the predicted deep features, and lastly, feature decoder recovers the predicted deep features to SD-OCT images. We further propose an evolution reinforcement module to ensure the effectiveness of disease evolution learning and obtain realistic SD-OCT images by adversarial training. SHENet is validated on 383 SD-OCT cubes of 22 nAMD patients based on three well-designed schemes based on the quantitative and qualitative evaluations. Compared with other generative methods, the generative SD-OCT images of SHENet have the highest image quality. Besides, SHENet achieves the best structure protection and content prediction. Qualitative evaluations also demonstrate that SHENet has a better visual effect than other methods. SHENet can generate post-therapeutic SD-OCT images with both high prediction performance and good image quality, which has great potential to help ophthalmologists forecast the therapeutic effect of nAMD.
M&M: Tackling False Positives in Mammography with a Multi-view and Multi-instance Learning Sparse Detector
Authors: Yen Nhi Truong Vu, Dan Guo, Ahmed Taha, Jason Su, Thomas Paul Matthews
Date: 2023-08-11 00:00:00
Tasks: object-detection, Object Detection

Deep-learning-based object detection methods show promise for improving screening mammography, but high rates of false positives can hinder their effectiveness in clinical practice. To reduce false positives, we identify three challenges: (1) unlike natural images, a malignant mammogram typically contains only one malignant finding; (2) mammography exams contain two views of each breast, and both views ought to be considered to make a correct assessment; (3) most mammograms are negative and do not contain any findings. In this work, we tackle the three aforementioned challenges by: (1) leveraging Sparse R-CNN and showing that sparse detectors are more appropriate than dense detectors for mammography; (2) including a multi-view cross-attention module to synthesize information from different views; (3) incorporating multi-instance learning (MIL) to train with unannotated images and perform breast-level classification. The resulting model, M&M, is a Multi-view and Multi-instance learning system that can both localize malignant findings and provide breast-level predictions. We validate M&M's detection and classification performance using five mammography datasets. In addition, we demonstrate the effectiveness of each proposed component through comprehensive ablation studies.
Taming Self-Training for Open-Vocabulary Object Detection
Authors: Shiyu Zhao, Samuel Schulter, Long Zhao, Zhixing Zhang, Vijay Kumar B. G, Yumin Suh, Manmohan Chandraker, Dimitris N. Metaxas
Date: 2023-08-11 00:00:00
Proceeding: CVPR 2024 1
Tasks: Object, object-detection, Object Detection, Open-vocabulary object detection, Open Vocabulary Object Detection

Recent studies have shown promising performance in open-vocabulary object detection (OVD) by utilizing pseudo labels (PLs) from pretrained vision and language models (VLMs). However, teacher-student self-training, a powerful and widely used paradigm to leverage PLs, is rarely explored for OVD. This work identifies two challenges of using self-training in OVD: noisy PLs from VLMs and frequent distribution changes of PLs. To address these challenges, we propose SAS-Det that tames self-training for OVD from two key perspectives. First, we present a split-and-fusion (SAF) head that splits a standard detection into an open-branch and a closed-branch. This design can reduce noisy supervision from pseudo boxes. Moreover, the two branches learn complementary knowledge from different training data, significantly enhancing performance when fused together. Second, in our view, unlike in closed-set tasks, the PL distributions in OVD are solely determined by the teacher model. We introduce a periodic update strategy to decrease the number of updates to the teacher, thereby decreasing the frequency of changes in PL distributions, which stabilizes the training process. Extensive experiments demonstrate SAS-Det is both efficient and effective. SAS-Det outperforms recent models of the same scale by a clear margin and achieves 37.4 AP50 and 29.1 APr on novel categories of the COCO and LVIS benchmarks, respectively. Code is available at \url{https://github.com/xiaofeng94/SAS-Det}.
Detecting and Preventing Hallucinations in Large Vision Language Models
Authors: Anisha Gunjal, Jihan Yin, Erhan Bas
Date: 2023-08-11 00:00:00
Tasks: 16k, Hallucination, Object Hallucination, Question Answering, Visual Question Answering, Visual Question Answering (VQA)

Instruction tuned Large Vision Language Models (LVLMs) have significantly advanced in generalizing across a diverse set of multi-modal tasks, especially for Visual Question Answering (VQA). However, generating detailed responses that are visually grounded is still a challenging task for these models. We find that even the current state-of-the-art LVLMs (InstructBLIP) still contain a staggering 30 percent of the hallucinatory text in the form of non-existent objects, unfaithful descriptions, and inaccurate relationships. To address this, we introduce M-HalDetect, a (M)ultimodal (Hal)lucination (Detect)ion Dataset that can be used to train and benchmark models for hallucination detection and prevention. M-HalDetect consists of 16k fine-grained annotations on VQA examples, making it the first comprehensive multi-modal hallucination detection dataset for detailed image descriptions. Unlike previous work that only consider object hallucination, we additionally annotate both entity descriptions and relationships that are unfaithful. To demonstrate the potential of this dataset for hallucination prevention, we optimize InstructBLIP through our novel Fine-grained Direct Preference Optimization (FDPO). We also train fine-grained multi-modal reward models from InstructBLIP and evaluate their effectiveness with best-of-n rejection sampling. We perform human evaluation on both FDPO and rejection sampling, and find that they reduce hallucination rates in InstructBLIP by 41% and 55% respectively. We also find that our reward model generalizes to other multi-modal models, reducing hallucinations in LLaVA and mPLUG-OWL by 15% and 57% respectively, and has strong correlation with human evaluated accuracy scores.
R2S100K: Road-Region Segmentation Dataset For Semi-Supervised Autonomous Driving in the Wild
Authors: Muhammad Atif Butt, Hassan Ali, Adnan Qayyum, Waqas Sultani, Ala Al-Fuqaha, Junaid Qadir
Date: 2023-08-11 00:00:00
Tasks: Autonomous Driving, Road Segmentation, Segmentation, Semantic Segmentation

Semantic understanding of roadways is a key enabling factor for safe autonomous driving. However, existing autonomous driving datasets provide well-structured urban roads while ignoring unstructured roadways containing distress, potholes, water puddles, and various kinds of road patches i.e., earthen, gravel etc. To this end, we introduce Road Region Segmentation dataset (R2S100K) -- a large-scale dataset and benchmark for training and evaluation of road segmentation in aforementioned challenging unstructured roadways. R2S100K comprises 100K images extracted from a large and diverse set of video sequences covering more than 1000 KM of roadways. Out of these 100K privacy respecting images, 14,000 images have fine pixel-labeling of road regions, with 86,000 unlabeled images that can be leveraged through semi-supervised learning methods. Alongside, we present an Efficient Data Sampling (EDS) based self-training framework to improve learning by leveraging unlabeled data. Our experimental results demonstrate that the proposed method significantly improves learning methods in generalizability and reduces the labeling cost for semantic segmentation tasks. Our benchmark will be publicly available to facilitate future research at https://r2s100k.github.io/.
U-RED: Unsupervised 3D Shape Retrieval and Deformation for Partial Point Clouds
Authors: Yan Di, Chenyangguang Zhang, Ruida Zhang, Fabian Manhardt, Yongzhi Su, Jason Rambach, Didier Stricker, Xiangyang Ji, Federico Tombari
Date: 2023-08-11 00:00:00
Proceeding: ICCV 2023 1
Tasks: 3D Shape Retrieval, Retrieval

In this paper, we propose U-RED, an Unsupervised shape REtrieval and Deformation pipeline that takes an arbitrary object observation as input, typically captured by RGB images or scans, and jointly retrieves and deforms the geometrically similar CAD models from a pre-established database to tightly match the target. Considering existing methods typically fail to handle noisy partial observations, U-RED is designed to address this issue from two aspects. First, since one partial shape may correspond to multiple potential full shapes, the retrieval method must allow such an ambiguous one-to-many relationship. Thereby U-RED learns to project all possible full shapes of a partial target onto the surface of a unit sphere. Then during inference, each sampling on the sphere will yield a feasible retrieval. Second, since real-world partial observations usually contain noticeable noise, a reliable learned metric that measures the similarity between shapes is necessary for stable retrieval. In U-RED, we design a novel point-wise residual-guided metric that allows noise-robust comparison. Extensive experiments on the synthetic datasets PartNet, ComplementMe and the real-world dataset Scan2CAD demonstrate that U-RED surpasses existing state-of-the-art approaches by 47.3%, 16.7% and 31.6% respectively under Chamfer Distance.
CATS v2: Hybrid encoders for robust medical segmentation
Authors: Hao Li, Han Liu, Dewei Hu, Xing Yao, Jiacheng Wang, Ipek Oguz
Date: 2023-08-11 00:00:00
Tasks: Domain Adaptation, Image Segmentation, Medical Image Segmentation, Segmentation, Semantic Segmentation

Convolutional Neural Networks (CNNs) have exhibited strong performance in medical image segmentation tasks by capturing high-level (local) information, such as edges and textures. However, due to the limited field of view of convolution kernel, it is hard for CNNs to fully represent global information. Recently, transformers have shown good performance for medical image segmentation due to their ability to better model long-range dependencies. Nevertheless, transformers struggle to capture high-level spatial features as effectively as CNNs. A good segmentation model should learn a better representation from local and global features to be both precise and semantically accurate. In our previous work, we proposed CATS, which is a U-shaped segmentation network augmented with transformer encoder. In this work, we further extend this model and propose CATS v2 with hybrid encoders. Specifically, hybrid encoders consist of a CNN-based encoder path paralleled to a transformer path with a shifted window, which better leverage both local and global information to produce robust 3D medical image segmentation. We fuse the information from the convolutional encoder and the transformer at the skip connections of different resolutions to form the final segmentation. The proposed method is evaluated on three public challenge datasets: Beyond the Cranial Vault (BTCV), Cross-Modality Domain Adaptation (CrossMoDA) and task 5 of Medical Segmentation Decathlon (MSD-5), to segment abdominal organs, vestibular schwannoma (VS) and prostate, respectively. Compared with the state-of-the-art methods, our approach demonstrates superior performance in terms of higher Dice scores. Our code is publicly available at https://github.com/MedICL-VU/CATS.
Surrogate Model for Geological CO2 Storage and Its Use in Hierarchical MCMC History Matching
Authors: Yifu Han, Francois P. Hamon, Su Jiang, Louis J. Durlofsky
Date: 2023-08-11 00:00:00

Deep-learning-based surrogate models show great promise for use in geological carbon storage operations. In this work we target an important application - the history matching of storage systems characterized by a high degree of (prior) geological uncertainty. Toward this goal, we extend the recently introduced recurrent R-U-Net surrogate model to treat geomodel realizations drawn from a wide range of geological scenarios. These scenarios are defined by a set of metaparameters, which include the horizontal correlation length, mean and standard deviation of log-permeability, permeability anisotropy ratio, and constants in the porosity-permeability relationship. An infinite number of realizations can be generated for each set of metaparameters, so the range of prior uncertainty is large. The surrogate model is trained with flow simulation results, generated using the open-source simulator GEOS, for 2000 random realizations. The flow problems involve four wells, each injecting 1 Mt CO2/year, for 30 years. The trained surrogate model is shown to provide accurate predictions for new realizations over the full range of geological scenarios, with median relative error of 1.3% in pressure and 4.5% in saturation. The surrogate model is incorporated into a hierarchical Markov chain Monte Carlo history matching workflow, where the goal is to generate history matched geomodel realizations and posterior estimates of the metaparameters. We show that, using observed data from monitoring wells in synthetic `true' models, geological uncertainty is reduced substantially. This leads to posterior 3D pressure and saturation fields that display much closer agreement with the true-model responses than do prior predictions.
Deep Learning-Based Open Source Toolkit for Eosinophil Detection in Pediatric Eosinophilic Esophagitis
Authors: Juming Xiong, Yilin Liu, Ruining Deng, Regina N Tyree, Hernan Correa, Girish Hiremath, Yaohong Wang, Yuankai Huo
Date: 2023-08-11 00:00:00
Tasks: Diagnostic, Ensemble Learning, object-detection, Object Detection

Eosinophilic Esophagitis (EoE) is a chronic, immune/antigen-mediated esophageal disease, characterized by symptoms related to esophageal dysfunction and histological evidence of eosinophil-dominant inflammation. Owing to the intricate microscopic representation of EoE in imaging, current methodologies which depend on manual identification are not only labor-intensive but also prone to inaccuracies. In this study, we develop an open-source toolkit, named Open-EoE, to perform end-to-end whole slide image (WSI) level eosinophil (Eos) detection using one line of command via Docker. Specifically, the toolkit supports three state-of-the-art deep learning-based object detection models. Furthermore, Open-EoE further optimizes the performance by implementing an ensemble learning strategy, and enhancing the precision and reliability of our results. The experimental results demonstrated that the Open-EoE toolkit can efficiently detect Eos on a testing set with 289 WSIs. At the widely accepted threshold of >= 15 Eos per high power field (HPF) for diagnosing EoE, the Open-EoE achieved an accuracy of 91%, showing decent consistency with pathologist evaluations. This suggests a promising avenue for integrating machine learning methodologies into the diagnostic process for EoE. The docker and source code has been made publicly available at https://github.com/hrlblab/Open-EoE.
Revolutionizing Space Health (Swin-FSR): Advancing Super-Resolution of Fundus Images for SANS Visual Assessment Technology
Authors: Khondker Fariha Hossain, Sharif Amit Kamran, Joshua Ong, Andrew G. Lee, Alireza Tavakkoli
Date: 2023-08-11 00:00:00
Tasks: Image Super-Resolution, Super-Resolution

The rapid accessibility of portable and affordable retinal imaging devices has made early differential diagnosis easier. For example, color funduscopy imaging is readily available in remote villages, which can help to identify diseases like age-related macular degeneration (AMD), glaucoma, or pathological myopia (PM). On the other hand, astronauts at the International Space Station utilize this camera for identifying spaceflight-associated neuro-ocular syndrome (SANS). However, due to the unavailability of experts in these locations, the data has to be transferred to an urban healthcare facility (AMD and glaucoma) or a terrestrial station (e.g, SANS) for more precise disease identification. Moreover, due to low bandwidth limits, the imaging data has to be compressed for transfer between these two places. Different super-resolution algorithms have been proposed throughout the years to address this. Furthermore, with the advent of deep learning, the field has advanced so much that x2 and x4 compressed images can be decompressed to their original form without losing spatial information. In this paper, we introduce a novel model called Swin-FSR that utilizes Swin Transformer with spatial and depth-wise attention for fundus image super-resolution. Our architecture achieves Peak signal-to-noise-ratio (PSNR) of 47.89, 49.00 and 45.32 on three public datasets, namely iChallenge-AMD, iChallenge-PM, and G1020. Additionally, we tested the model's effectiveness on a privately held dataset for SANS provided by NASA and achieved comparable results against previous architectures.
Towards Packaging Unit Detection for Automated Palletizing Tasks
Authors: Markus Völk, Kilian Kleeberger, Werner Kraus, Richard Bormann
Date: 2023-08-11 00:00:00

For various automated palletizing tasks, the detection of packaging units is a crucial step preceding the actual handling of the packaging units by an industrial robot. We propose an approach to this challenging problem that is fully trained on synthetically generated data and can be robustly applied to arbitrary real world packaging units without further training or setup effort. The proposed approach is able to handle sparse and low quality sensor data, can exploit prior knowledge if available and generalizes well to a wide range of products and application scenarios. To demonstrate the practical use of our approach, we conduct an extensive evaluation on real-world data with a wide range of different retail products. Further, we integrated our approach in a lab demonstrator and a commercial solution will be marketed through an industrial partner.
Discovering Local Binary Pattern Equation for Foreground Object Removal in Videos
Authors: Caroline Pacheco do Espirito Silva, Andrews Cordolino Sobral, Antoine Vacavant, Thierry Bouwmans, Felippe De Souza
Date: 2023-08-11 00:00:00
Tasks: Symbolic Regression

Designing a novel Local Binary Pattern (LBP) process usually relies heavily on human experts' knowledge and experience in the area. Even experts are often left with tedious episodes of trial and error until they identify an optimal LBP for a particular dataset. To address this problem, we present a novel symbolic regression able to automatically discover LBP formulas to remove the moving parts of a scene by segmenting it into a background and a foreground. Experimental results conducted on real videos of outdoor urban scenes under various conditions show that the LBPs discovered by the proposed approach significantly outperform the previous state-of-the-art LBP descriptors both qualitatively and quantitatively. Our source code and data will be available online.
Classification of All Blood Cell Images using ML and DL Models
Authors: Rabia Asghar, Sanjay Kumar, Paul Hynds, Abeera Mahfooz
Date: 2023-08-11 00:00:00
Tasks: All, Classification, Transfer Learning

Human blood primarily comprises plasma, red blood cells, white blood cells, and platelets. It plays a vital role in transporting nutrients to different organs, where it stores essential health-related data about the human body. Blood cells are utilized to defend the body against diverse infections, including fungi, viruses, and bacteria. Hence, blood analysis can help physicians assess an individual's physiological condition. Blood cells have been sub-classified into eight groups: Neutrophils, eosinophils, basophils, lymphocytes, monocytes, immature granulocytes (promyelocytes, myelocytes, and metamyelocytes), erythroblasts, and platelets or thrombocytes on the basis of their nucleus, shape, and cytoplasm. Traditionally, pathologists and hematologists in laboratories have examined these blood cells using a microscope before manually classifying them. The manual approach is slower and more prone to human error. Therefore, it is essential to automate this process. In our paper, transfer learning with CNN pre-trained models. VGG16, VGG19, ResNet-50, ResNet-101, ResNet-152, InceptionV3, MobileNetV2, and DenseNet-20 applied to the PBC dataset's normal DIB. The overall accuracy achieved with these models lies between 91.375 and 94.72%. Hence, inspired by these pre-trained architectures, a model has been proposed to automatically classify the ten types of blood cells with increased accuracy. A novel CNN-based framework has been presented to improve accuracy. The proposed CNN model has been tested on the PBC dataset normal DIB. The outcomes of the experiments demonstrate that our CNN-based framework designed for blood cell classification attains an accuracy of 99.91% on the PBC dataset. Our proposed convolutional neural network model performs competitively when compared to earlier results reported in the literature.
Classification of White Blood Cells Using Machine and Deep Learning Models: A Systematic Review
Authors: Rabia Asghar, Sanjay Kumar, Paul Hynds, Arslan Shaukat
Date: 2023-08-11 00:00:00
Tasks: Classification, Data Augmentation, Medical Image Analysis

Machine learning (ML) and deep learning (DL) models have been employed to significantly improve analyses of medical imagery, with these approaches used to enhance the accuracy of prediction and classification. Model predictions and classifications assist diagnoses of various cancers and tumors. This review presents an in-depth analysis of modern techniques applied within the domain of medical image analysis for white blood cell classification. The methodologies that use blood smear images, magnetic resonance imaging (MRI), X-rays, and similar medical imaging domains are identified and discussed, with a detailed analysis of ML/DL techniques applied to the classification of white blood cells (WBCs) representing the primary focus of the review. The data utilized in this research has been extracted from a collection of 136 primary papers that were published between the years 2006 and 2023. The most widely used techniques and best-performing white blood cell classification methods are identified. While the use of ML and DL for white blood cell classification has concurrently increased and improved in recent year, significant challenges remain - 1) Availability of appropriate datasets remain the primary challenge, and may be resolved using data augmentation techniques. 2) Medical training of researchers is recommended to improve current understanding of white blood cell structure and subsequent selection of appropriate classification models. 3) Advanced DL networks including Generative Adversarial Networks, R-CNN, Fast R-CNN, and faster R-CNN will likely be increasingly employed to supplement or replace current techniques.