On the evaluation of methods for the recovery of plant root systems from X-ray computed tomography images

Mairhofer, Stefan and Sturrock, Craig and Wells, Darren M. and Bennett, Malcom J. and Mooney, Sacha J. and Pridmore, Tony (2014) On the evaluation of methods for the recovery of plant root systems from X-ray computed tomography images. Functional Plant Biology . ISSN 1445-4408

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Abstract

X-ray micro computed tomography (µCT) allows non-destructive visualisation of plant root systems within their soil environment and thus offers an alternative to commonly used destructive methodologies for the examination of plant roots and their interaction with the surrounding soil. Various methods for the recovery of root system information from X-ray CT image data have been presented in the literature. Detailed, ideally quantitative, evaluation is essential, in order to determine the accuracy and limitations of the proposed methods, and to allow potential users to make informed choices between them. This, however, is a complicated task. Three-dimensional ground truth data is expensive to produce, and the complexity of X-ray CT data means that manually generated ground truth may not be definitive. Similarly, artificially generated data is not entirely representative of real samples. The aims of this work are to raise awareness of the evaluation problem and to propose experimental approaches that allow the performance of root extraction methods to be assessed, ultimately improving the techniques available. To illustrate the issues, tests are conducted using both artificially generated images and real data samples.

Item Type: Article
Keywords: Root architecture, Root image analysis, Segmentation
Schools/Departments: University of Nottingham UK Campus > Faculty of Science > School of Biosciences
University of Nottingham UK Campus > Faculty of Science > School of Computer Science
Identification Number: https://doi.org/10.1071/FP14071
Depositing User: Mairhofer, Stefan
Date Deposited: 27 Jan 2015 09:13
Last Modified: 16 Sep 2016 02:20
URI: http://eprints.nottingham.ac.uk/id/eprint/28206

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