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"Allworth, James"
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A set of personal guidelines that have helped the author find meaning and happiness in his life.
Book
Using Synthetic Tree Data in Deep Learning-Based Tree Segmentation Using LiDAR Point Clouds
Deep learning, neural networks and other data-driven processing techniques are increasingly used in the analysis of LiDAR point cloud data in forest environments due to the benefits offered in accuracy and adaptability to new environments. One of the downsides of these techniques in practical applications is the requirement for manually annotated data necessary for training neural networks, which can be time consuming and costly to attain. We develop an approach to training neural networks for forest tree stem segmentation from point clouds that uses synthetic data from a custom tree simulator, which can generate large quantities of training examples without manual human effort. Our tree simulator captures the geometric characteristics of tree stems and foliage, from which automatically-labelled synthetic point clouds can be generated for training a semantic segmentation algorithm based on the PointNet++ architecture. Using evaluations on real aerial and terrestrial LiDAR point clouds from a range of different forest sites, we demonstrate our synthetic data-trained models can out-perform, or provide comparable performance with models trained on real data from other sites or when available real training data is limited (increases in IoU from 1–7%). Our simulation code is open-source and made available to the research community.
Journal Article
Development of a High Fidelity Simulator for Generalised Photometric Based Space Object Classification using Machine Learning
This paper presents the initial stages in the development of a deep learning classifier for generalised Resident Space Object (RSO) characterisation that combines high-fidelity simulated light curves with transfer learning to improve the performance of object characterisation models that are trained on real data. The classification and characterisation of RSOs is a significant goal in Space Situational Awareness (SSA) in order to improve the accuracy of orbital predictions. The specific focus of this paper is the development of a high-fidelity simulation environment for generating realistic light curves. The simulator takes in a textured geometric model of an RSO as well as the objects ephemeris and uses Blender to generate photo-realistic images of the RSO that are then processed to extract the light curve. Simulated light curves have been compared with real light curves extracted from telescope imagery to provide validation for the simulation environment. Future work will involve further validation and the use of the simulator to generate a dataset of realistic light curves for the purpose of training neural networks.
Paper
Clinical Characteristics, Etiology, and Initial Management Strategy of Newly Diagnosed Periprosthetic Joint Infection: A Multicenter, Prospective Observational Cohort Study of 783 Patients
BackgroundPeriprosthetic joint infection (PJI) is a devastating complication of joint replacement surgery. Most observational studies of PJI are retrospective or single-center, and reported management approaches and outcomes vary widely. We hypothesized that there would be substantial heterogeneity in PJI management and that most PJIs would present as late acute infections occurring as a consequence of bloodstream infections.MethodsThe Prosthetic joint Infection in Australia and New Zealand, Observational (PIANO) study is a prospective study at 27 hospitals. From July 2014 through December 2017, we enrolled all adults with a newly diagnosed PJI of a large joint. We collected data on demographics, microbiology, and surgical and antibiotic management over the first 3 months postpresentation.ResultsWe enrolled 783 patients (427 knee, 323 hip, 25 shoulder, 6 elbow, and 2 ankle). The mode of presentation was late acute (>30 days postimplantation and <7 days of symptoms; 351, 45%), followed by early (≤30 days postimplantation; 196, 25%) and chronic (>30 days postimplantation with ≥30 days of symptoms; 148, 19%). Debridement, antibiotics, irrigation, and implant retention constituted the commonest initial management approach (565, 72%), but debridement was moderate or less in 142 (25%) and the polyethylene liner was not exchanged in 104 (23%).ConclusionsIn contrast to most studies, late acute infection was the most common mode of presentation, likely reflecting hematogenous seeding. Management was heterogeneous, reflecting the poor evidence base and the need for randomized controlled trials.We enrolled 783 patients in a prospective, observational binational study of peri-prosthetic joint infection. Late, acute infections were the commonest mode of presentation. Microbiological causes differed according to affected joint and the timing of the infection. Management approaches were heterogeneous.
Journal Article
Evidence for polar cytoplasm nuage in rat oocytes
In many organisms oocytes contain dark-staining material, termed nuage, that is concentrated at one pole of the oocyte cytoplasm and that influences the further development of the oocyte after fertilization. In mammalian oocytes, ultrastructural studies have detected small patches of nuage-like material, but thus far no nuage-rich zone of polar cytoplasm has been reported. Here, we report that when large sections of rat ovary embedded in methacrylate resin are stained with toluidine blue and surveyed, many oocytes contain a narrow, sharply defined, basophilic zone of polar cytoplasm that appears analogous to the polar cytoplasm of Xenopus and other non-mammalian species. This basophilic polar cytoplasm was common in multilaminar follicles and was not visible in smaller, primordial follicles. In one out of five oocytes stimulated with hCG to complete the first meiotic division, a relatively faint region of cortical basophilia was detectable. Further studies will be needed to ascertain if this nuage-like material has an influence upon the development of oocytes similar to that seen in non-mammalian species.
Journal Article