21 accepted papers
This position paper argues that current benchmarking practice in 12-lead ECG representation learning must be fixed to ensure progress is reliable and aligned with clinically meaningful objectives. The field has largely converged on three public multi-label benchmarks (PTB-XL, CPSC2018, CSN) dominate…
Accurate registration of brain MRI scans is fundamental for cross-subject analysis in neuroscientific studies. This involves aligning both the cortical surface of the brain and the interior volume. Traditional methods treat volumetric and surface-based registration separately, which often leads to i…
It is difficult to evaluate machine learning classifiers without large labeled datasets, which are often unavailable. In contrast, unlabeled data is plentiful, but not easily used for evaluation. Here, we introduce Semi-Supervised Model Evaluation (SSME), a method that uses both labeled and unlabel…
We present MultiMorph, a fast and efficient method for constructing anatomical atlases on the fly. Atlases capture the canonical structure of a collection of images and are essential for quantifying anatomical variability across populations. However, current atlas construction methods often require…
Medical researchers and clinicians often need to perform novel segmentation tasks on a set of related images. Existing methods for segmenting a new dataset are either interactive, requiring substantial human effort for each image, or require an existing set of previously labeled images. We introduce…
A single biomedical image can be segmented in multiple valid ways, depending on the application. For instance, a brain MRI may be divided according to tissue types, vascular territories, broad anatomical regions, fine-grained anatomy, or pathology. Existing automatic segmentation models typically ei…
A conformal classifier produces a set of predicted classes and provides a probabilistic guarantee that the set includes the true class. Unfortunately, it is often the case that conformal classifiers produce uninformatively large sets. In this work, we show that test-time augmentation (TTA)---a techn…
Large language models (LLMs) are capable of generating *plausible* explanations of how they arrived at an answer to a question. However, these explanations can misrepresent the model's "reasoning" process, i.e., they can be *unfaithful*. This, in turn, can lead to over-trust and misuse. We introduce…
Hypernetworks, neural networks that predict the parameters of another neural network, are powerful models that have been successfully used in diverse applications from image generation to multi-task learning. Unfortunately, existing hypernetworks are often challenging to train. Training typically co…
"Biomedical image segmentation is a crucial part of both scientific research and clinical care. With enough labelled data, deep learning models can be trained to accurately automate specific biomedical image segmentation tasks. However, manually segmenting images to create training data is highly la…
Convolutional Neural Networks (CNNs) are the predominant model used for a variety of medical image analysis tasks. At inference time, these models are computationally intensive, especially with volumetric data.In principle, it is possible to trade accuracy for computational efficiency by manipulatin…
Self-supervised learning (SSL) for clinical time series data has received significant attention in recent literature, since these data are highly rich and provide important information about a patient's physiological state. However, most existing SSL methods for clinical time series are limited in t…
While deep learning models have become the predominant method for medical image segmentation, they are typically not capable of generalizing to unseen segmentation tasks involving new anatomies, image modalities, or labels. Given a new segmentation task, researchers generally have to train or fine-t…
Test-time augmentation---the aggregation of predictions across transformed versions of a test input---is a common practice in image classification. Traditionally, predictions are combined using a simple average. In this paper, we present 1) experimental analyses that shed light on cases in which the…
One of the ways that machine learning algorithms can help control the spread of an infectious disease is by building models that predict who is likely to become infected making them good candidates for preemptive interventions. In this work we ask: can we build reliable infection prediction models w…
Multiplying matrices is among the most fundamental and most computationally demanding operations in machine learning and scientific computing. Consequently, the task of efficiently approximating matrix products has received significant attention. We introduce a learning-based algorithm for this task…
Estimation of individual treatment effects is commonly used as the basis for contextual decision making in fields such as healthcare, education, and economics. However, it is often sufficient for the decision maker to have estimates of upper and lower bounds on the potential outcomes of decision alt…
We develop a learning framework for building deformable templates, which play a fundamental role in many image analysis and computational anatomy tasks. Conventional methods for template creation and image alignment to the template have undergone decades of rich technical development. In these frame…
We present a fast learning-based algorithm for deformable, pairwise 3D medical image registration. Current registration methods optimize an objective function independently for each pair of images, which can be time-consuming for large data. We define registration as a parametric function, and optim…
We consider the problem of segmenting a biomedical image into anatomical regions of interest. We specifically address the frequent scenario where we have no paired training data that contains images and their manual segmentations. Instead, we employ unpaired segmentation images that we use to build…
We address the computational problem of novel human pose synthesis. Given an image of a person and a desired pose, we produce a depiction of that person in that pose, retaining the appearance of both the person and background. We present a modular generative neural network that synthesizes unseen po…