Coronavirus Disease 2019 (COVID-19) has spread aggressively across the world causing an existential health crisis. Thus, having a system that automatically detects COVID-19 in tomography (CT) images can assist in quantifying the severity of the illness. Unfortunately, labelling chest CT scans requires significant domain expertise, time, and effort. We address these labelling challenges by only requiring point annotations, a single pixel for each infected region on a CT image. This labeling scheme allows annotators to label a pixel in a likely infected region, only taking 1-3 seconds, as opposed to 10-15 seconds to segment a region. Conventionally, segmentation models train on point-level annotations using the cross-entropy loss function on these labels. However, these models often suffer from low precision. Thus, we propose a consistency-based (CB) loss function that encourages the output predictions to be consistent with spatial transformations of the input images. The experiments on 3 open-source COVID-19 datasets show that this loss function yields significant improvement over conventional point-level loss functions and almost matches the performance of models trained with full supervision with much less human effort. Code is available at: https://github.com/IssamLaradji/covid19_weak_supervision.

Deep convolutional neural networks have revolutionized many machine learning and computer vision tasks, however, some remaining key challenges limit their wider use. These challenges include improving the network’s robustness to perturbations of the input image and the limited “field of view” of convolution operators. We introduce the IMEXnet that addresses these challenges by adapting semi-implicit methods for partial differential equations. Compared to similar explicit networks, such as residual networks, our network is more stable, which has recently shown to reduce the sensitivity to small changes in the input features and improve generalization. The addition of an implicit step connects all pixels in each channel of the image and therefore addresses the field of view problem while still being comparable to standard convolutions in terms of the number of parameters and computational complexity. We also present a new dataset for semantic segmentation and demonstrate the effectiveness of our architecture using the NYU Depth dataset.