Monitors the growth of the plant roots as well as the activity of genes that respond to environmental stress. GLO-Roots can be used to measure the water content of soil at different depths and how this influences the architecture of the root. It provides functions permitting different type of analyses on images for instance detecting the position, length, and direction of roots, as well as their shape and depth.
A software tool for quantification of root system architectures in a range of plant species, grown and imaged in a variety of ways. The expectation-maximization algorithm is used to classify the initial image, and produce a probability map of regions likely to contain root material. An intuitive user interface allows the user to guide in the detection of complex root paths, including the ability to overcome areas of challenging root structure, or image noise. Measurements can be exported directly, or saved in a database, where additional traits can be calculated later using a simple plug-in system.
Allows users to perform automated image analysis of plant roots. RootGraph is a method that employs a weighted graph-based optimization step to produce an automated, primary root identification procedure. It is able to estimate the number, length, and diameter of roots and can separate primary roots from lateral roots. This tool can quantify traits for each primary root as well as each primary root’s associated lateral roots, but can do so under high-throughput conditions.
A tool that extracts graphs from images of networks originating in various domains. NEFI provides a platform allowing practitioners to easily extract graphs from images by combining basic tools from image processing, computer vision and graph theory. Thus, NEFI constitutes an alternative to tedious manual graph extraction and special purpose tools. We anticipate NEFI to enable time-efficient collection of large datasets. The analysis of these novel datasets may open up the possibility to gain new insights into the structure and function of various networks.
Serves for the high-throughput analysis of root system architecture. GiA Roots estimates root system architecture (RSA) traits from a large number of root system images and identify roots from the background, i.e., segmenting the image. It includes: an optional userassisted processing of images, scale calibration, trait selection, image segmentation, and trait measurement.
Allows analysis the macroscopic structure of veins in leaves. LEAF GUI is a program built upon a series of algorithms designed to threshold, clean, and segment images of leaves in which the vein structure is visible. The software enables users to extract descriptive statistics on the dimensions and positions of leaf veins and the areoles they surround by following a series of thresholding, cleaning, and segmentation algorithms given images of leaves where veins have been enhanced relative to the background.
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