Data and statistical code for the manuscript on RhizoVision Explorer for root image analysis

These are the data and statistical code needed to reproduce the analysis in the manuscript describing validation of  RhizoVision Explorer, and open-source software for image analysis of plant roots. This code validates measurements such as length, average diameter, surface area, and volume against ground truth data from a copper wire image set, and compares these measurements against other image analysis software for a simulated image set and with real root scans from various plant species.

Please cite this repository if the code is used for your work.

Citation of the manuscript:

Seethepalli, A., Dhakal, K., Griffiths, M., Guo, H., Freschet, G. T., York, L. M. (2021). RhizoVision Explorer: Open-source software for root image analysis and measurement standardization. AoB PLANTS, plab056, https://doi.org/10.1093/aobpla/plab056

Instructions: Download and extract the ZIP file. The .R file is a text file containing the the code for R. All required packages are described in the script, and the code is designed to use the RStudio API to automatically select the working directory as the one from which the script is contained in. The needed data is in the 'Input files' directory and will automatically be loaded using relative paths. As long as the needed packages are installed, the code should run and produce all graphical output and statistics.