If you know your calibration values just enter the number of pixels in a known distance. (If you don't go to step 4 and you can enter the scale information directly into the 'Set Scale' dialog.) Select the straight line selection tool:ĭefines a known distance on your calibration image (5mm in this case):įilled in for you based on the length of the line you drew in step 3. Ĭalibration scale (ie a ruler or a stage micrometer) open the image. Details can be found in the license file after clicking the download button.If it is not installed already. The software is available under a non-profit as well as under a commercial license. We conclude that ImageJ as popular open source imaging platform is a good choice for implementing an image analysis system for plant variety testing and phenotyping to automatically and reliably measure a large variety of plant characteristics. The software is proven to be very robust, where disturbing factors on the objects, such as small crown leaves are removed automatically. Identification of the images is done using a QR code label. Calibration is done using a calibration disc in a separate part of the image. Measured features include length, width and area based on the skeleton, distance transform, and derivative of the outer contour. The following crops are implemented: flax seeds, flax bolls, pods of pea and beans, cotyledons of sugar beets, carrot and onion. This software is implemented as an plugin for the popular opensource image processing package ImageJ. Together with Naktuinbouw we developed a user-friendly image analysis system has been established for recording and analysis of images using a standard camera. Moreover, the results obtained by using image analysis are much more accurate than results of manual measurements. The use of image analysis leads to a significant decrease of time needed for measuring the characteristics. Several characteristics, related to shape and form are tedious to measure by hand and should be measured in an objective and reproducible way. These guidelines are established by the International Union for the Protection of New Varieties of Plants (UPOV) and the Community Plant Variety Office (CPVO). The characteristics are described in guidelines and protocols for each crop. For plant variety testing many plant characteristics need to be measured to assess distinctness between varieties and uniformity and stability of a variety.
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