Three-Dimensional GPU-Accelerated Active Contours for Automated Localization of Cells in Large Images

Cell segmentation in microscopy is a challenging problem, since cells are often asymmetric and densely packed. This becomes particularly challenging for extremely large images, since manual intervention and processing time can make segmentation intractable. In this paper, we present an efficient and highly parallel formulation for symmetric three-dimensional (3D) contour evolution that extends previous work on fast two-dimensional active contours. We provide a formulation for optimization on 3D images, as well as a strategy for accelerating computation on consumer graphics hardware. The proposed software takes advantage of Monte-Carlo sampling schemes in order to speed up convergence and reduce thread divergence. Experimental results show that this method provides superior performance for large 2D and 3D cell segmentation tasks when compared to existing methods on large 3D brain images

Full-resolution Lung Nodule Segmentation from Chest X-ray Images using Residual Encoder-Decoder Networks

Lung cancer is the leading cause of cancer death and early diagnosis is associated with a positive prognosis. Chest X-ray (CXR) provides an inexpensive imaging mode for lung cancer diagnosis. Suspicious nodules are difficult to distinguish from vascular and bone structures using CXR. Computer vision has previously been proposed to assist human radiologists in this task, however, leading studies use down-sampled images and computationally expensive methods with unproven generalization. Instead, this study localizes lung nodules using efficient encoder-decoder neural networks that process full resolution images to avoid any signal loss resulting from down-sampling. Encoder-decoder networks are trained and tested using the JSRT lung nodule dataset. The networks are used to localize lung nodules from an independent external CXR dataset. Sensitivity and false positive rates are measured using an automated framework to eliminate any observer subjectivity. These experiments allow for the determination of the optimal network depth, image resolution and pre-processing pipeline for generalized lung nodule localization. We find that nodule localization is influenced by subtlety, with more subtle nodules being detected in earlier training epochs. Therefore, we propose a novel self-ensemble model from three consecutive epochs centered on the validation optimum. This ensemble achieved a sensitivity of 85% in 10-fold internal testing with false positives of 8 per image. A sensitivity of 81% is achieved at a false positive rate of 6 following morphological false positive reduction. This result is comparable to more computationally complex systems based on linear and spatial filtering, but with a sub-second inference time that is faster than other methods. The proposed algorithm achieved excellent generalization results against an external dataset with sensitivity of 77% at a false positive rate of 7.6

LEyes: A Lightweight Framework for Deep Learning-Based Eye Tracking using Synthetic Eye Images

Deep learning has bolstered gaze estimation techniques, but real-world deployment has been impeded by inadequate training datasets. This problem is exacerbated by both hardware-induced variations in eye images and inherent biological differences across the recorded participants, leading to both feature and pixel-level variance that hinders the generalizability of models trained on specific datasets. While synthetic datasets can be a solution, their creation is both time and resource-intensive. To address this problem, we present a framework called Light Eyes or "LEyes" which, unlike conventional photorealistic methods, only models key image features required for video-based eye tracking using simple light distributions. LEyes facilitates easy configuration for training neural networks across diverse gaze-estimation tasks. We demonstrate that models trained using LEyes are consistently on-par or outperform other state-of-the-art algorithms in terms of pupil and CR localization across well-known datasets. In addition, a LEyes trained model outperforms the industry standard eye tracker using significantly more cost-effective hardware. Going forward, we are confident that LEyes will revolutionize synthetic data generation for gaze estimation models, and lead to significant improvements of the next generation video-based eye trackers.Comment: 32 pages, 8 figure

Principal component-based image segmentation: a new approach to outline in vitro cell colonies

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