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Tools

Tools


Selection Tool

The selection tool is used to select individual items in the currently selected layer. These items can be deleted using the selection tool.

How to use:

To use the selection tool, click on the corresponding icon in the toolbar menu. To select a specific item, the layer containing the item must be visible and selected. A dashed rectangle will appear, once a shape is selected with the selection tool. By clicking and dragging of the selection tool, multiple items can be selected. The selected items can be deleted by pressing the 'Backslash' or 'Delete' Key on the keyboard.


Painting Tool

The painting tool is used to draw on the currently selected layer, by dragging the mouse.

How to use:

To use the painting tool, click on the corresponding icon in the toolbar menu. By click and dragging the left mouse button, while a layer is selected, the shape that is drawn with the mouse will appear on the selected layer. By click and dragging of the right mouse button or by pressing the ctrl/cmd key while click and dragging the left mouse button, parts of an existing segmentation can be deleted. It is possible to fill shapes using this tool by double clicking at the position that should be filled. This allows for a fast way to draw outlines of segmentations and fill them with no need to change the tool in between.

Tool Options:

The width of the painting tool can be adapted by changing the brush slider that is displayed in the options menu as soon as the tool is selected. The value defines the width of the circle that is drawn around the mouse tip, as the mouse is dragged.


Ellipse Tool

The ellipse tool is used to segment elliptic regions in the selected layer.

How to use:

To use the ellipse tool, click on the corresponding icon in the toolbar menu. When a layer is selected, elliptic regions can be added to the segmentation by clicking the left mouse button at the center of the ellipse that should be segmented. By dragging the mouse, the shape of the ellipse can be adapted. By pressing the ctrl/cmd key while clicking the left button, or by clicking the right mouse button, the segmentation inside the ellipses shape will be removed from the segmentation.


Rectangle Tool

The rectangle tool is used to segment rectangular regions in the selected layer.

How to use:

To use the rectangle tool, click on the corresponding icon in the toolbar menu. When a layer is selected, rectangular regions can be added to the segmentation by clicking the left mouse button at the upper left corner of the rectangle that should be segmented. By dragging the mouse, the shape of the rectangle can be adapted. When pressing the ctrl/cmd key while clicking the left button, or by clicking the right mouse button, the segmentation inside the rectangle shape will be removed from the segmentation.


Region Growing Tool

The region fill tool is used to segment regions on the selected layer with similar colors or intensities in the current background image.

How to use:

To use the region fill tool, click on the corresponding icon in the toolbar menu. When a layer is selected, regions that look similar in the background image can be segmented by clicking and dragging the left mouse button at the center of the region that should be segmented. As the mouse is dragged further from the initial position, the selected region will grow. On release of the mouse, the current shape is added to the selected layer.

Tool Options:

When the region fill tool is selected, two sliders appear in the options menu, that allows adapting the behavior of the tool. The Compactness slider needs to be adapted based on the shape of the region that is segmented. For regions that have a rather round shape, the compactness should be set high, whereas, for regions that do show more complex shapes, the compactness needs to be set lower. The second slider can be set to adapt the sensitivity of the tool. A higher value will cause the shape to grow faster with less movement of the mouse. A lower value will have the opposite effect, meaning the mouse needs to be dragged further for the shape to grow as much.


Fill Tool

The fill tool is used to fill enlosed regions in the selected layer.

How to use:

To use the fill tool, click on the corresponding icon in the toolbar menu. When a layer is selected, entire regions can be segmented by clicking the left mouse button inside the region that should be filled. By pressing the ctrl/cmd key while clicking the left button, or by clicking the right mouse button, a continuous segmentation can be removed from the segmentation.

Tool Options:

There is an option to autofill regions in a shape using this tool by selecting the "Autofill regions" checkbox. If this checkbox is selected, all holes in the selected shape are automatically filled when using this tool. This is especially useful when a segmentation shape contains a lot of small holes that should be filled.


Zooming Tool

The zoom tool is used to zoom in and out in the image. It also allows resetting the zoom, such that the image is fit in the screen

How to use:

To use the zoom tool, click on the corresponding icon in the toolbar menu. By clicking the mouse button, the image is zoomed closer. The opposite effect can be achieved by pressing the ctrl/cmd key while the mouse is clicked. The zoom can be reset so that the image is maximally fit inside the screen area by pressing the K key. A custom region to display inside the window can be selected by pressing and dragging the mouse. In this case, a rectangle will be drawn on the screen, that represents the region that will be fit inside the window.


Point Tool

The Point tool is used to set landmarks in a point layer. It can only be used when a point layer is selected.

How to use:

To use the point tool, click on the corresponding icon in the toolbar menu. By clicking the left mouse button, a point is added at the current pointer location. The point can be removed when clicking the right mouse button at the location of an existing point.


Measurement Tool

The Measurement tool is used to measure distances as well as areas. A coordinate system can be set to allow for relative measurements.

How to use:

To use the measurement tool, click on the corresponding icon in the toolbar menu. By clicking the left mouse button on an existing shape or point, the shape's area and centroid are displayed in the "Options" window. To measure a distance or angle, the mouse needs to be pressed and dragged. A dashed line appears that indicates the currently measured distance. The results are displayed in the "Options" window.

To set a new Coordinate System, click on the "Set Coordinate System" button in the Options window. Now click on the image where the center of the new coordinate system should be placed and drag the mouse. The dashed lines indicate the new x- and y-Axis that are set. When releasing the mouse, the new coordinate system is set, and the measurement will be adapted accordingly.