Software for semi-automated quantification of complex root system architectures

RootNav is 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-Maximisation 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. RootNav is written in C# .NET, and as such runs only on Windows machines with an up-to-date version of the .NET framework installed. It is possible to run RootNav on a Mac computer using software such as parallels.

RootNav has been published in a paper in Plant Physiology. RootNav is being released as open source. It can be downloaded from Sourceforge. We have produced documentation that outlines the use of RootNav, and a simple quick start guide to familiarise yourself with the software. These can be found below.

Quick Start Guide

The quick start guide contains an introductory document and associated images. It is aimed at new RootNav users, and will familiarise you with the basic functionality of the software. Quick start guide.

User Documentation

More detailed information on the software can be found in the documentation. RootNav Documentation.


For further information on the software, please contact Michael Pound.