plant-image-analysis.org
Plant Image Analysis - References
http://www.plant-image-analysis.org/references
Analysis of Maize (Zea mays L.) Seedling Roots with the High-Throughput Image Analysis Tool ARIA (Automatic Root Image Analysis). J Pace, N. Lee, HS. Naik, B. Ganapathysubramanian, T. Lübberstedt,. 2014 , PLoS ONE , 9(9), 0. A novel tracking tool for the analysis of plant-root tip movements. A Russino, A. Ascrizzi, L. Popova, A. Tonazzini, S. Mancuso, B. Mazzolai,. 2013 , Bioinspir Biomim , 8(2), 25004. Integrated genetic and computation methods for in planta cytometry. 2012 , Nat. Methods , 9(5), 483.
plant-image-analysis.org
Plant Image Analysis - Balloon Plugin
http://www.plant-image-analysis.org/software/balloon-plugin
Lionel Dupuy @ James Hutton Institute. Integrated genetic and computation methods for in planta cytometry. F Federici, L. Dupuy, L. Laplaze, M. Heisler, J. Haseloff,. 2012 , Nat. Methods , 9(5), 483. Balloon Plugin is a Fiji plugin that allows the segmentation off cell wall boundaries from microscopy images and to extract cell architectures . It uses a physical balloon inflation algorithm for finding the cell boundaries from 8bits images. Features include:. Extraction of lists of individual cell shapes.
plant-image-analysis.org
Plant Image Analysis - Cefiler
http://www.plant-image-analysis.org/software/cefiler
Automatic characterization of the cell organization in light microscopic images of wood: Application to the identification of the cell file. Brunel, Guilhem; Borianne, Philippe; Subsol, Gerard; Jaeger, Marc; Caraglio, Yves. Plant Growth Modeling, Simulation, Visualization and Applications (PMA), 2012 IEEE Fourth International Symposium on ,pp.58,65. Blog comments powered by Disqus. Submit your own rating. Windows, mac, linux,. Surface, perimeter, width, shape, localisation,. Csv, xml,.
plant-image-analysis.org
Plant Image Analysis - Celer
http://www.plant-image-analysis.org/software/celer
Celer is a half-automated plugin used to analyse the geometry of cells (lumen size, wall thickness,) provided by light microscopic images. The study process only the sharp parts of the image: these parts are automatically detected by the application. The numerical results are saved in csv files, easily readable on spreadsheet. Blog comments powered by Disqus. Submit your own rating. Windows, mac, linux,. Surface, width, length,. Celer is part of the Toaster plugin. Other tools for the analysis of cell.
plant-image-analysis.org
Plant Image Analysis - Canopy Analysis
http://www.plant-image-analysis.org/software/canopy-analysis
LAI Detective's Lab @ University of Helsinki. Automated Analysis of in Situ Canopy Images for the Estimation of Forest Canopy Cover. Korhonen, L and Heikkinen, J. 2009 Forest Science, Volume 55 (4),323-334. The script presented here is an automated method for the estimation of canopy cover from skyward-looking canopy images obtained with standard digital cameras. Modified from: Korhonen and Heikkinen (2009) Forest Science, Volume 55 (4),323-334. Blog comments powered by Disqus. Submit your own rating.
plant-image-analysis.org
Plant Image Analysis - Submit
http://www.plant-image-analysis.org/submit
If you know a software we did not present (yours, for instance), we will gladly add it to our list. To do so, here is what you have to do:. Make you software downloadable (see below). Fill out this presentation form. Prepare some screenshots and, if you have one, an image of your logo. Send us an e-mail. With everything (presentation images). As soon as we recieve all these informations, we will create a presentation page for your software and reference it on this website. How to host your software.
plant-image-analysis.org
Plant Image Analysis - BRAT
http://www.plant-image-analysis.org/software/brat
Busch lab @ Gregor Mendel Institute. A Scalable Open-Source Pipeline for Large-Scale Root Phenotyping of Arabidopsis. R Slovak, C. Göschl, X. Su, K. Shimotani, T. Shiina, W. Busch,. 2014 , Plant Cell , 0(0), 0. Blog comments powered by Disqus. Submit your own rating. Windows, mac, linux,. Open-source, freeware,. Length, diameter, orientation,. Other tools for the analysis of single-root. Created and maintained by Guillaume Lobet. Powered and inspired by Kirby.
plant-image-analysis.org
Plant Image Analysis - Related websites
http://www.plant-image-analysis.org/related
Links of general interest for anyone doing plant image analysis. Wiki site about ImageJ. Fiji is an image processing package. It can be described as a distribution of ImageJ (and soon ImageJ2) together with Java, Java 3D and a lot of plugins organized into a coherent menu structure. Fiji compares to ImageJ as Ubuntu compares to Linux. Links to research groups of special interest, mainly because they host several plant image analysis softwares. Center for Plant Integrative Biology. The Center for Plant In...
plant-image-analysis.org
Plant Image Analysis - ARTT
http://www.plant-image-analysis.org/software/artt
Center for Micro-BioRobotics @ SSSA, Istituto Italiano di Tecnologia. A novel tracking tool for the analysis of plant-root tip movements. A Russino, A. Ascrizzi, L. Popova, A. Tonazzini, S. Mancuso, B. Mazzolai,. 2013 , Bioinspir Biomim , 8(2), 25004. Modified from: Russino et al. (2013) Bioinspiration and biomimetics , 8(2). Blog comments powered by Disqus. Submit your own rating. Velocity-profile, localisation, orientation,. Jpg, csv,. Other tools for the analysis of single-root.
