Quantitative phenotyping of plant roots using spectral electrical impedance tomography: a rhizotron study on maize and bean crops with optimized measurement design

Data repository In this repository, the data accompanying the publication "Quantitative phenotyping of plant roots using spectral electrical impedance tomography: a rhizotron study on maize and bean crops with optimized measurement design", published in "Plant Methods", is stored. The publication can be found at https://doi.org/10.1186/s13007-024-01247-7 Dataset structure The dataset is structured in the following directories: complex resistivity inversions The folder "new_filter_approach_v4_allfreqs", contains all inversion results for frequencies from 0.79 Hz to 1 kHz, sorted by plant name. The data are given as tomodirs (see https://github.com/geophysics-ubonn/crtomo_tools for importing tomodir data within a python framework). In the folder "scatterdata_from_invs", electrical parameters from the inversions are given for x-y-locations in the grid. dd_fit_results_all_cells In this folder, the results of the Debye-Decomposition for all cells in the grid are given, together with the x-y-locations in the grid. dd_fit_results_only_plants In this folder, the results of the Debye-Decomposition for all cells within the root zone in the grid are given, together with the x-y-locations in the grid. grid Contains all files to construct the inversion grid using crtomo_tools. images_plants Contains photos for all measured plants, labeled according to the datasets in the manuscript. impedance_data In the folder "uncorrected", the raw impedance measurements for all plants are saved (only the correction for the resistivity magnitude is applied to account for the mismatch of 2D inversion and 3D measurement). The folder "corrected" containst the imepdance data that was corrected with background water measurements. The file "md_data_impedance.csv" contains the contact resistances and leakage currents for all measurements. optimization This folder contains the results for the synthetic modelling using an optimized (OPT_full) and reduced (OPT_middle) scheme, as described in the manuscript. As for the experimental results, inversions are given in tomodir format. The file "exp.csv" contains the xy-coordinates of the outline of the synthetic polarization signature. plots Contains all plots that are shown in the manuscript. root_data In the folder "root_area_polygons", the xy-coordinates of the outline of each root system in the rhizotron experiments, extracted from images of the front of the rhizotron, are saved. The file "extracted_elec_params_from_area_v4.csv" contains electical parameters from the inversion results for a number of frequencies for all cells that lie within the root area polygons. The file "Root_traits_final.csv" contains the individually measured root traits via weighing and scanning. scripts The scripts "0_plot_methods.py", "1_plot_results.py", "2_plot_discussion.py" and "3_plot_supplementary.py" create all plots shown in the manuscript and save them in the "plots"-directory.数据集仓库 本仓库存储了发表于《植物方法（Plant Methods）》的论文《基于光谱电阻抗层析成像的植物根系定量表型分析：玉米与菜豆作物根箱优化测量方案研究（Quantitative phenotyping of plant roots using spectral electrical impedance tomography: a rhizotron study on maize and bean crops with optimized measurement design）》配套的数据。该论文可通过https://doi.org/10.1186/s13007-024-01247-7获取。 数据集结构 本数据集按以下目录组织： 复电阻率反演 "new_filter_approach_v4_allfreqs"文件夹包含0.79 Hz至1 kHz全频段的所有反演结果，按植物名称分类存储。数据以tomodir格式存储（相关导入方法可参考https://github.com/geophysics-ubonn/crtomo_tools，该链接可在Python框架中导入tomodir格式数据）。 "scatterdata_from_invs"文件夹存储了反演得到的、对应网格内x-y位置的电学参数。 dd_fit_results_all_cells 该文件夹存储了网格内所有单元的德拜分解（Debye-Decomposition）结果，以及对应的网格x-y位置信息。 dd_fit_results_only_plants 该文件夹存储了网格内根区范围内所有单元的德拜分解（Debye-Decomposition）结果，以及对应的网格x-y位置信息。 grid 该文件夹包含使用crtomo_tools构建反演网格所需的全部文件。 images_plants 该文件夹包含所有被测植株的照片，命名与论文手稿中的数据集一一对应。 impedance_data "uncorrected"子文件夹存储了所有植株的原始阻抗测量数据（仅施加了电阻率幅值校正，以弥补二维反演与三维测量之间的不匹配问题）；"corrected"子文件夹存储了经背景水体测量校正后的阻抗数据。文件"md_data_impedance.csv"包含了所有测量的接触电阻与漏电流信息。 optimization 该文件夹包含采用论文所述优化（OPT_full）与简化（OPT_middle）方案得到的正演模拟结果。反演结果以tomodir格式存储，与实验结果一致。文件"exp.csv"包含了合成极化特征轮廓的xy坐标信息。 plots 该文件夹包含论文手稿中展示的全部图表。 root_data "root_area_polygons"子文件夹存储了从根箱正面照片中提取的、根箱实验中各根系系统轮廓的xy坐标信息。文件"extracted_elec_params_from_area_v4.csv"包含了根区多边形内所有单元在多个频段下的反演电学参数。文件"Root_traits_final.csv"包含了通过称重与扫描方法单独测得的根系性状数据。 scripts 脚本"0_plot_methods.py""1_plot_results.py""2_plot_discussion.py"与"3_plot_supplementary.py"可生成论文手稿中的全部图表，并将结果保存至"plots"目录。