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Labkit

1,321 bytes added, 09:12, 11 October 2018
Basic Usage
# From Labkit's main menu select "Segmentation -> Show Segmentation Result in ImageJ", to export your segmentation into ImageJ.
=== Basic Navigation ===
Labkit is based on Big Data Viewer. Navigation the image works as in Big Data Viewer, and many short cuts work too. Click [[BigDataViewer|here]] for a description of the short cuts.
* {{key press|Ctrl|Shift|mouse-wheel}} to zoom in and out
* {{key press|right-click|drag}} to move the image
* {{key press|mouse-wheel}} to scroll through the z-slices of a 3d image
=== Create Labels =Tricks ==
When {{key press|Space}} is pressedImportant to know:* If there's a black window, while where the image should be? You might need to change the mouse is over contrast settings: Click on the image, a circle around the mouse pointer will appear.* and then press {{key press|Space|left clickS}} mark on the pixels inside keyboard. A dialog shows up. Use it to adjust the circlecontrast.* {{key press|Space|right There can be more than two labels, just click}} remove on the add label button.* Labels can be renamed, by double clicking on them.* To change the mark from label color, just click on the pixels inside colored rectangle left of the circlelabels name.Keyboard.* {{key press|SpaceD|mouse -wheel}} to change the size of the circle used to mark pixelsbrush tool.
By default pixels can be marked as "foreground" or "background"== Drawing Tool Shortcuts ==* {{key press|D|left-click}} to draw with the pencil tool.* {{key press|E|left-click}} to erase with the pencil tool. To switch between these two labels * {{key press|F|left click}} to use the flood fill tool.* {{key press|R|left-click}} to remove a connected component.* {{key press|N}}- switch to next label == Open & Save - Import & Export ==* Things you can save, open, import or export:** Labeling - As *.tif or *.labeling** Bitmap - (One layer of the labeling) As *.tif** Classifier - As *.classifier, only Labkit is able to work with them.** Segmentation result - As *.tif, or show to ImageJ** Segmentation's probability Map - As *.tif, or show in ImageJ* The word "Labeling" is used to refer to the colorfully displayed areas overlayed on top of the image.* Labkit's file format for Labelings is *.labeling. It works greate for very large files with very few labels. (This file format is likely to be imporved and changed in the futur.)* The labeling can be saved and opened as *.tif as well. (This is a good option for not to big images. And can be used by any other tool.)
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