downloads:3dtrackviewer
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| + | ~~NOTOC~~ | ||
| + | [{{ : | ||
| + | ====== 3D Track Viewer ====== | ||
| + | ===== Author ===== | ||
| + | |||
| + | Kota Miura\\ | ||
| + | Centre for Molecular and Cellular Imaging (CMCI)\\ | ||
| + | EMBL Heidelberg\\ | ||
| + | miura at embl dot de\\ | ||
| + | Tel: +49 6221 387 404 | ||
| + | |||
| + | ===== History ===== | ||
| + | |||
| + | * 2012-04-23 First Version | ||
| + | * 2012-07-11 2nd version | ||
| + | * new: single track extractor to evaluate tracks by comparing to the volume rendering of the original stack. | ||
| + | * new: Capability to use track color-coding from the output of MTrackJ. FOr using the output of MTrackJ, another jython script that converts the data structure is required (description will be added later). | ||
| + | * recent log in detail | ||
| + | {{rss> | ||
| + | |||
| + | ===== Source ===== | ||
| + | |||
| + | Released under the [[http:// | ||
| + | |||
| + | ===== Requires ===== | ||
| + | |||
| + | Most recent Fiji ([[http:// | ||
| + | |||
| + | ===== Installation ===== | ||
| + | |||
| + | Download the plugin using this link: | ||
| + | * [[https:// | ||
| + | |||
| + | The plugin will appear under the following menu tree: [Plugins -> EMBLTools -> 4D track Plotter]. | ||
| + | |||
| + | ===== Description ===== | ||
| + | |||
| + | This 3D visualization tool is an extended functionality for [[http:// | ||
| + | |||
| + | index - trackID - frame - x - y - z - scaled x - scaled y - scaled z - particleID | ||
| + | |||
| + | [{{ : | ||
| + | |||
| + | ==== workflow ==== | ||
| + | |||
| + | - Click " | ||
| + | - Decide if you would like to visualize tracks as a static 3D path, or dynamic 4D path (" | ||
| + | - 4D path consumes memory. If your machine does not have enough memory or CPU power, you might need to wait for a very long time if your data is large. | ||
| + | - Decide if you want to also see path nodes. | ||
| + | - Activate the checkbox according to your decision. | ||
| + | - 4D path / nodes cannot be visualized together with 3D path and vice versa. | ||
| + | - click " | ||
| + | |||
| + | === MTrackJ file === | ||
| + | For loading MTrackJ output file, the file should first be converted using [[https:// | ||
| + | |||
| + | ==== Example of coordinate data ==== | ||
| + | |||
| + | Below is an example of data file that could be loaded from 3D tracker viewer. SXpos,SYpos &SZpos are the columns of 3D coordinates that will be used for the plotting. S stands for scaled. | ||
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