gdat was developed as assistance tool aiming to provide computer aided support during the detection of time point of germination (to be precise: the time point of first occurrence of the shoot at the surface). The tool is designed to process a set of fluorescence images in a fully automated way .
The detection of germination and the first occurrence of the shoot is an important information for many biological questions. To detect the first occurrence of shoots one can make use of the fact that chlorophyll containing plant organs are fluorescing red. Therefore, the occurrence of such red pixels within an image can be taken as indicator for germination/occurrence of a shoot.
After a very short calibration, the tool automatically counts the number of red dots within a defined radius around the expected plant location. The number of red dots is further used to determine if plant material is visible or not.
The gdat is implemented to automatically process a set of fluorescence images consisting ether of one, six or 12 plants in order to calculate the number of red pixels within each spot. The results are written into a database file.
Leibniz Institute of Plant Genetics and Crop Plant Research (IPK)
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