Update Outputs authored by Gaëlle  LETORT's avatar Gaëlle LETORT
...@@ -5,6 +5,7 @@ Some measurement options are/will be proposed here, as well as options to export ...@@ -5,6 +5,7 @@ Some measurement options are/will be proposed here, as well as options to export
* [Apply on: define current selection](#define-current-selection) * [Apply on: define current selection](#define-current-selection)
* [Export to extern plugins](#export-to-other-plugins) * [Export to extern plugins](#export-to-other-plugins)
* [Export segmentations](#save-segmentations) * [Export segmentations](#save-segmentations)
* [Export events](#export-events)
* [Measure cell features](#measure-cell-features) * [Measure cell features](#measure-cell-features)
* [Measure track features](#measure-track-features) * [Measure track features](#measure-track-features)
...@@ -47,6 +48,18 @@ The button `Save segmentation(s)` allows to save the label image of the segmente ...@@ -47,6 +48,18 @@ The button `Save segmentation(s)` allows to save the label image of the segmente
Allows to save the skeleton: the binary of the junctions, of the current selection (only selected cells, cells of a given group, or all cells). The file will be saved in the output folder. Allows to save the skeleton: the binary of the junctions, of the current selection (only selected cells, cells of a given group, or all cells). The file will be saved in the output folder.
The skeleton can also be displayed by pressing <kbd>k>/kdb> when the segmentation layer is active. The skeleton can also be displayed by pressing <kbd>k>/kdb> when the segmentation layer is active.
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# Export events
Export events (in the `Inspect` onglet) to use in extern plugins/softwares as `Fiji`.
You can choose which type of events to export (suspect events, divisions, extrusions...). For this click the `Choose events` button and select the event types to export. Each type of event will be exported separately.
Then choose the type of format to export the event.
Currently, only `Fiji ROI` is proposed. It will save the list of events as `Fiji point ROI` in a `.zip` file which can be open in Fiji through the `ROI Manager`. This export format is also compatible with [`DeXtrusion`](https://gitlab.pasteur.fr/gletort/dextrusion) so that EpiCure can be used to create a training dataset for DeXtrusion.
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# Measure cell features # Measure cell features
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