This work introduces a method that combines remote sensing and deep learning into a framework that is tailored for accurate, reliable and efficient counting and sizing of plants in aerial images. The investigated task focuses on two low-density crops, potato and lettuce. This double objective of counting and sizing is achieved through the detection and segmentation of individual plants by fine-tuning an existing deep learning architecture called Mask R-CNN. This paper includes a thorough discussion on the optimal parametrisation to adapt the Mask R-CNN architecture to this novel task. As we examine the correlation of the Mask R-CNN performance to the annotation volume and granularity (coarse or refined) of remotely sensed images of plants, we conclude that transfer learning can be effectively used to reduce the required amount of labelled data. Indeed, a previously trained Mask R-CNN on a low-density crop can improve performances after training on new crops. Once trained for a given crop, the Mask R-CNN solution is shown to outperform a manually-tuned computer vision algorithm. Model performances are assessed using intuitive metrics such as Mean Average Precision (mAP) from Intersection over Union (IoU) of the masks for individual plant segmentation and Multiple Object Tracking Accuracy (MOTA) for detection. The presented model reaches an mAP of $0.418$ for potato plants and $0.660$ for lettuces for the individual plant segmentation task. In detection, we obtain a MOTA of $0.781$ for potato plants and $0.918$ for lettuces.

The accurate split of large areas of land into discrete fields is a crucial step for several agriculture-related remote sensing pipelines. This work aims to fully automate this tedious and resource-demanding process using a state-of-the-art deep learning algorithm with only a single Sentinel-2 image as input. The Mask R-CNN, which has forged its success upon instance segmentation for objects from everyday life, is adapted for the field boundary detection problem. Such model automatically generates closed geometries without any heavy post-processing. When tested with satellite imagery from Denmark, this tailored model correctly predicts field boundaries with an overall accuracy of 0.79. Besides, it demonstrates a robust knowledge generalisation with positive results over different geographies, as it gets an overall accuracy of 0.71 when used over areas in France.

Background: The National COVID-19 Chest Imaging Database (NCCID) is a centralized database containing mainly chest X-rays and computed tomography scans from patients across the UK. The objective of the initiative is to support a better understanding of the coronavirus SARS-CoV-2 disease (COVID-19) and the development of machine learning technologies that will improve care for patients hospitalized with a severe COVID-19 infection. This article introduces the training dataset, including a snapshot analysis covering the completeness of clinical data, and availability of image data for the various use-cases (diagnosis, prognosis, longitudinal risk). An additional cohort analysis measures how well the NCCID represents the wider COVID-19–affected UK population in terms of geographic, demographic, and temporal coverage. Findings: The NCCID offers high-quality DICOM images acquired across a variety of imaging machinery; multiple time points including historical images are available for a subset of patients. This volume and variety make the database well suited to development of diagnostic/prognostic models for COVID-associated respiratory conditions. Historical images and clinical data may aid long-term risk stratification, particularly as availability of comorbidity data increases through linkage to other resources. The cohort analysis revealed good alignment to general UK COVID-19 statistics for some categories, e.g., sex, whilst identifying areas for improvements to data collection methods, particularly geographic coverage. Conclusion: The NCCID is a growing resource that provides researchers with a large, high-quality database that can be leveraged both to support the response to the COVID-19 pandemic and as a test bed for building clinically viable medical imaging models.