Short Description
This plugin is the first stage of a cell tracking pipeline using parametric snakes. See the plugin snake tracker for more details, and to download the whole pipeline in one click.Documentation
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TED:
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Presentation
TED is a plugin for ICY detecting ellipsoidal shapes in 2D and 3D images. It outputs a list of ROI.
TED was designed to work with the Active Cells and Active Cells Tracker plugins and can be used in a Protocols pipeline (see PACT: a Pipeline for Automated Cell Tracking).
Parameters
| Radius Range |
Expected radius range of the cells to detect. |
| Target Brightness | Indicates if the the cells are darker than the background (Dark) or the opposite (Bright). |
| Threshold | Controls the segmentation step. A small value leads to the detection of less contrasted objects. |
| Optimize Descriptors | Indicates if the descriptors of the detected cells have to be optimized. |
| Maximum number of iterations | Maximum number of iterations during the optimization process. |
Remark: The preview checkbox allows the user to see the result of the segmentation step. It could be a good idea to use that in order to play with the threshold parameter, before starting the whole process.
Final output
