Ophthalmic Biomarker Detection: Highlights from the IEEE Video and Image Processing Cup 2023 Student Competition

The VIP Cup offers a unique experience to undergraduates, allowing students to work together to solve challenging, real-world problems with video and image processing techniques. In this iteration of the VIP Cup, we challenged students to balance personalization and generalization when performing biomarker detection in 3D optical coherence tomography (OCT) images. Balancing personalization and generalization is an important challenge to tackle, as the variation within OCT scans of patients between visits can be minimal while the difference in manifestation of the same disease across different patients may be substantial. The domain difference between OCT scans can arise due to pathology manifestation across patients, clinical labels, and the visit along the treatment process when the scan is taken. Hence, we provided a multimodal OCT dataset to allow teams to effectively target this challenge. Overall, this competition gave undergraduates an opportunity to learn about how artificial intelligence can be a powerful tool for the medical field, as well as the unique challenges one faces when applying machine learning to biomedical data.

CRACKS: Crowdsourcing Resources for Analysis and Categorization of Key Subsurface faults

Crowdsourcing annotations has created a paradigm shift in the availability of labeled data for machine learning. Availability of large datasets has accelerated progress in common knowledge applications involving visual and language data. However, specialized applications that require expert labels lag in data availability. One such application is fault segmentation in subsurface imaging. Detecting, tracking, and analyzing faults has broad societal implications in predicting fluid flows, earthquakes, and storing excess atmospheric CO$_2$. However, delineating faults with current practices is a labor-intensive activity that requires precise analysis of subsurface imaging data by geophysicists. In this paper, we propose the $\texttt{CRACKS}$ dataset to detect and segment faults in subsurface images by utilizing crowdsourced resources. We leverage Amazon Mechanical Turk to obtain fault delineations from sections of the Netherlands North Sea subsurface images from (i) $26$ novices who have no exposure to subsurface data and were shown a video describing and labeling faults, (ii) $8$ practitioners who have previously interacted and worked on subsurface data, (iii) one geophysicist to label $7636$ faults in the region. Note that all novices, practitioners, and the expert segment faults on the same subsurface volume with disagreements between and among the novices and practitioners. Additionally, each fault annotation is equipped with the confidence level of the annotator. The paper provides benchmarks on detecting and segmenting the expert labels, given the novice and practitioner labels. Additional details along with the dataset links and codes are available at $\href{https://alregib.ece.gatech.edu/cracks-crowdsourcing-resources-for-analysis-and-categorization-of-key-subsurface-faults/}{link}$.

Evaluating BM3D and NBNet: A Comprehensive Study of Image Denoising Across Multiple Datasets

This paper investigates image denoising, comparing traditional non-learning-based techniques, represented by Block-Matching 3D (BM3D), with modern learning-based methods, exemplified by NBNet. We assess these approaches across diverse datasets, including CURE-OR, CURE-TSR, SSID+, Set-12, and Chest-Xray, each presenting unique noise challenges. Our analysis employs seven Image Quality Assessment (IQA) metrics and examines the impact on object detection performance. We find that while BM3D excels in scenarios like blur challenges, NBNet is more effective in complex noise environments such as under-exposure and over-exposure. The study reveals the strengths and limitations of each method, providing insights into the effectiveness of different denoising strategies in varied real-world applications.

Intelligent Multi-View Test Time Augmentation

In this study, we introduce an intelligent Test Time Augmentation (TTA) algorithm designed to enhance the robustness and accuracy of image classification models against viewpoint variations. Unlike traditional TTA methods that indiscriminately apply augmentations, our approach intelligently selects optimal augmentations based on predictive uncertainty metrics. This selection is achieved via a two-stage process: the first stage identifies the optimal augmentation for each class by evaluating uncertainty levels, while the second stage implements an uncertainty threshold to determine when applying TTA would be advantageous. This methodological advancement ensures that augmentations contribute to classification more effectively than a uniform application across the dataset. Experimental validation across several datasets and neural network architectures validates our approach, yielding an average accuracy improvement of 1.73% over methods that use single-view images. This research underscores the potential of adaptive, uncertainty-aware TTA in improving the robustness of image classification in the presence of viewpoint variations, paving the way for further exploration into intelligent augmentation strategies.

Are Objective Explanatory Evaluation metrics Trustworthy? An Adversarial Analysis

Explainable AI (XAI) has revolutionized the field of deep learning by empowering users to have more trust in neural network models. The field of XAI allows users to probe the inner workings of these algorithms to elucidate their decision-making processes. The rise in popularity of XAI has led to the advent of different strategies to produce explanations, all of which only occasionally agree. Thus several objective evaluation metrics have been devised to decide which of these modules give the best explanation for specific scenarios. The goal of the paper is twofold: (i) we employ the notions of necessity and sufficiency from causal literature to come up with a novel explanatory technique called SHifted Adversaries using Pixel Elimination(SHAPE) which satisfies all the theoretical and mathematical criteria of being a valid explanation, (ii) we show that SHAPE is, infact, an adversarial explanation that fools causal metrics that are employed to measure the robustness and reliability of popular importance based visual XAI methods. Our analysis shows that SHAPE outperforms popular explanatory techniques like GradCAM and GradCAM++ in these tests and is comparable to RISE, raising questions about the sanity of these metrics and the need for human involvement for an overall better evaluation.

Explaining Representation Learning with Perceptual Components

Self-supervised models create representation spaces that lack clear semantic meaning. This interpretability problem of representations makes traditional explainability methods ineffective in this context. In this paper, we introduce a novel method to analyze representation spaces using three key perceptual components: color, shape, and texture. We employ selective masking of these components to observe changes in representations, resulting in distinct importance maps for each. In scenarios, where labels are absent, these importance maps provide more intuitive explanations as they are integral to the human visual system. Our approach enhances the interpretability of the representation space, offering explanations that resonate with human visual perception. We analyze how different training objectives create distinct representation spaces using perceptual components. Additionally, we examine the representation of images across diverse image domains, providing insights into the role of these components in different contexts.

Taxes Are All You Need: Integration of Taxonomical Hierarchy Relationships into the Contrastive Loss

In this work, we propose a novel supervised contrastive loss that enables the integration of taxonomic hierarchy information during the representation learning process. A supervised contrastive loss operates by enforcing that images with the same class label (positive samples) project closer to each other than images with differing class labels (negative samples). The advantage of this approach is that it directly penalizes the structure of the representation space itself. This enables greater flexibility with respect to encoding semantic concepts. However, the standard supervised contrastive loss only enforces semantic structure based on the downstream task (i.e. the class label). In reality, the class label is only one level of a \emph{hierarchy of different semantic relationships known as a taxonomy}. For example, the class label is oftentimes the species of an animal, but between different classes there are higher order relationships such as all animals with wings being ``birds". We show that by explicitly accounting for these relationships with a weighting penalty in the contrastive loss we can out-perform the supervised contrastive loss. Additionally, we demonstrate the adaptability of the notion of a taxonomy by integrating our loss into medical and noise-based settings that show performance improvements by as much as 7%.

VOICE: Variance of Induced Contrastive Explanations to quantify Uncertainty in Neural Network Interpretability

In this paper, we visualize and quantify the predictive uncertainty of gradient-based post hoc visual explanations for neural networks. Predictive uncertainty refers to the variability in the network predictions under perturbations to the input. Visual post hoc explainability techniques highlight features within an image to justify a network's prediction. We theoretically show that existing evaluation strategies of visual explanatory techniques partially reduce the predictive uncertainty of neural networks. This analysis allows us to construct a plug in approach to visualize and quantify the remaining predictive uncertainty of any gradient-based explanatory technique. We show that every image, network, prediction, and explanatory technique has a unique uncertainty. The proposed uncertainty visualization and quantification yields two key observations. Firstly, oftentimes under incorrect predictions, explanatory techniques are uncertain about the same features that they are attributing the predictions to, thereby reducing the trustworthiness of the explanation. Secondly, objective metrics of an explanation's uncertainty, empirically behave similarly to epistemic uncertainty. We support these observations on two datasets, four explanatory techniques, and six neural network architectures. The code is available at https://github.com/olivesgatech/VOICE-Uncertainty.

Effective Data Selection for Seismic Interpretation through Disagreement

This paper presents a discussion on data selection for deep learning in the field of seismic interpretation. In order to achieve a robust generalization to the target volume, it is crucial to identify the specific samples are the most informative to the training process. The selection of the training set from a target volume is a critical factor in determining the effectiveness of the deep learning algorithm for interpreting seismic volumes. This paper proposes the inclusion of interpretation disagreement as a valuable and intuitive factor in the process of selecting training sets. The development of a novel data selection framework is inspired by established practices in seismic interpretation. The framework we have developed utilizes representation shifts to effectively model interpretation disagreement within neural networks. Additionally, it incorporates the disagreement measure to enhance attention towards geologically interesting regions throughout the data selection workflow. By combining this approach with active learning, a well-known machine learning paradigm for data selection, we arrive at a comprehensive and innovative framework for training set selection in seismic interpretation. In addition, we offer a specific implementation of our proposed framework, which we have named ATLAS. This implementation serves as a means for data selection. In this study, we present the results of our comprehensive experiments, which clearly indicate that ATLAS consistently surpasses traditional active learning frameworks in the field of seismic interpretation. Our findings reveal that ATLAS achieves improvements of up to 12% in mean intersection-over-union.

Transitional Uncertainty with Layered Intermediate Predictions

In this paper, we discuss feature engineering for single-pass uncertainty estimation. For accurate uncertainty estimates, neural networks must extract differences in the feature space that quantify uncertainty. This could be achieved by current single-pass approaches that maintain feature distances between data points as they traverse the network. While initial results are promising, maintaining feature distances within the network representations frequently inhibits information compression and opposes the learning objective. We study this effect theoretically and empirically to arrive at a simple conclusion: preserving feature distances in the output is beneficial when the preserved features contribute to learning the label distribution and act in opposition otherwise. We then propose Transitional Uncertainty with Layered Intermediate Predictions (TULIP) as a simple approach to address the shortcomings of current single-pass estimators. Specifically, we implement feature preservation by extracting features from intermediate representations before information is collapsed by subsequent layers. We refer to the underlying preservation mechanism as transitional feature preservation. We show that TULIP matches or outperforms current single-pass methods on standard benchmarks and in practical settings where these methods are less reliable (imbalances, complex architectures, medical modalities).