Outputs (22)

Domain Adaptation of Synthetic Images for Wheat Head Detection (2021)
Journal Article
Hartley, Z. K., & French, A. P. (2021). Domain Adaptation of Synthetic Images for Wheat Head Detection. Plants, 10(12), Article 2633. https://doi.org/10.3390/plants10122633

Wheat head detection is a core computer vision problem related to plant phenotyping that in recent years has seen increased interest as large-scale datasets have been made available for use in research. In deep learning problems with limited training... Read More about Domain Adaptation of Synthetic Images for Wheat Head Detection.

RootNav 2.0: Deep learning for automatic navigation of complex plant root architectures (2019)
Journal Article
Yasrab, R., Atkinson, J. A., Wells, D. M., French, A. P., Pridmore, T. P., & Pound, M. P. (2019). RootNav 2.0: Deep learning for automatic navigation of complex plant root architectures. GigaScience, 8(11), Article giz123. https://doi.org/10.1093/gigascience/giz123

BACKGROUND: In recent years quantitative analysis of root growth has become increasingly important as a way to explore the influence of abiotic stress such as high temperature and drought on a plant's ability to take up water and nutrients. Segmentat... Read More about RootNav 2.0: Deep learning for automatic navigation of complex plant root architectures.

A convolutional neural network for fast upsampling of undersampled tomograms in X-ray CT time-series using a representative highly sampled tomogram (2019)
Journal Article
Bellos, D., Basham, M., Pridmore, T., & French, A. P. (2019). A convolutional neural network for fast upsampling of undersampled tomograms in X-ray CT time-series using a representative highly sampled tomogram. Journal of Synchrotron Radiation, 26(3), 839-853. https://doi.org/10.1107/s1600577519003448

We designed a convolutional neural network to quickly and accurately upscale the sinograms of x-ray tomograms captured with a low number of projections; effectively increasing the number of projections. This is particularly useful for tomograms that... Read More about A convolutional neural network for fast upsampling of undersampled tomograms in X-ray CT time-series using a representative highly sampled tomogram.

Active Vision and Surface Reconstruction for 3D Plant Shoot Modelling (2019)
Journal Article
Gibbs, J., French, A., Murchie, E., Wells, D., Pound, M., & Pridmore, T. (2020). Active Vision and Surface Reconstruction for 3D Plant Shoot Modelling. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 17(6), 1907-1917. https://doi.org/10.1109/TCBB.2019.2896908

Plant phenotyping is the quantitative description of a plant’s physiological, biochemical and anatomical status which can be used in trait selection and helps to provide mechanisms to link underlying genetics with yield. Here, an active vision- based... Read More about Active Vision and Surface Reconstruction for 3D Plant Shoot Modelling.

Deep Hourglass for Brain Tumor Segmentation (2019)
Book Chapter
Benson, E., Pound, M. P., French, A. P., Jackson, A. S., & Pridmore, T. P. (2019). Deep Hourglass for Brain Tumor Segmentation. In BrainLes 2018: Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries (419-428). Springer. https://doi.org/10.1007/978-3-030-11726-9_37

The segmentation of a brain tumour in an MRI scan is a challenging task, in this paper we present our results for this problem via the BraTS 2018 challenge, consisting of 210 high grade glioma (HGG) and 75 low grade glioma (LGG) volumes for training.... Read More about Deep Hourglass for Brain Tumor Segmentation.

Plant phenotyping: an active vision cell for three-dimensional plant shoot reconstruction (2018)
Journal Article
Gibbs, J., Pound, M., French, A. P., Wells, D. M., Murchie, E., & Pridmore, T. (2018). Plant phenotyping: an active vision cell for three-dimensional plant shoot reconstruction. Plant Physiology, 178(2), 524-534. https://doi.org/10.1104/pp.18.00664

© 2018 American Society of Plant Biologists. All rights reserved. Three-dimensional (3D) computer-generated models of plants are urgently needed to support both phenotyping and simulation-based studies such as photosynthesis modeling. However, the co... Read More about Plant phenotyping: an active vision cell for three-dimensional plant shoot reconstruction.

Enhancing supervised classifications with metamorphic relations (2018)
Presentation / Conference Contribution
Xu, L., Towey, D., French, A. P., Benford, S., Zhou, Z. Q., & Chen, T. Y. (2018, May). Enhancing supervised classifications with metamorphic relations. Presented at Proceedings of the 3rd International Workshop on Metamorphic Testing - MET '18

We report on a novel use of metamorphic relations (MRs) in machine learning: instead of conducting metamorphic testing, we use MRs for the augmentation of the machine learning algorithms themselves. In particular, we report on how MRs can enable enha... Read More about Enhancing supervised classifications with metamorphic relations.

Deep learning for multi-task plant phenotyping (2017)
Presentation / Conference Contribution
Pound, M. P., Atkinson, J. A., Wells, D. M., Pridmore, T. P., & French, A. P. (2017). Deep learning for multi-task plant phenotyping. In Proceedings of the IEEE International Conference on Computer Vision (ICCV), 2017 (2055-2063). https://doi.org/10.1109/ICCVW.2017.241

Plant phenotyping has continued to pose a challenge to computer vision for many years. There is a particular demand to accurately quantify images of crops, and the natural variability and structure of these plants presents unique difficulties. Recent... Read More about Deep learning for multi-task plant phenotyping.

Hyperspectral image analysis techniques for the detection and classification of the early onset of plant disease and stress (2017)
Journal Article
Lowe, A., Harrison, N., & French, A. P. (2017). Hyperspectral image analysis techniques for the detection and classification of the early onset of plant disease and stress. Plant Methods, 13, Article 80. https://doi.org/10.1186/s13007-017-0233-z

This review explores how imaging techniques are being developed with a focus on deployment for crop monitoring methods. Imaging applications are discussed in relation to both field and glasshouse-based plants, and techniques are sectioned into ‘healt... Read More about Hyperspectral image analysis techniques for the detection and classification of the early onset of plant disease and stress.

Volume Segmentation and Analysis of Biological Materials Using SuRVoS (Super-region Volume Segmentation) Workbench (2017)
Journal Article
Darrow, M. C., Luengo, I., Basham, M., Spink, M. C., Irvine, S., French, A. P., …Duke, E. M. (2017). Volume Segmentation and Analysis of Biological Materials Using SuRVoS (Super-region Volume Segmentation) Workbench. Journal of Visualized Experiments, Article e56162. https://doi.org/10.3791/56162

Segmentation is the process of isolating specific regions or objects within an imaged volume, so that further study can be undertaken on these areas of interest. When considering the analysis of complex biological systems, the segmentation of three-d... Read More about Volume Segmentation and Analysis of Biological Materials Using SuRVoS (Super-region Volume Segmentation) Workbench.