In the Tiles - Advanced Setup your main features to create regions and positions are in two toolbars on top and on the left of the viewer. The options available in the top toolbar depend on what is selected in the left toolbar.
Tiles Toolbars
Left Toolbar
Here you select which setup you use to set tile regions or positions.
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Parameter |
Description |
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Displays the tools to define the settings for a preview scan, see Preview Scan Toolbar. Typically a low magnification objective and a channel which protects your sample (e.g. transmitted light) is used. This gives you a low resolution overview of the sample to mark tile regions and/or positions. |
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Tiles |
Here you can select which setup you want to use to set the tile regions. The corresponding tools are displayed in the top toolbar, see Top Toolbar. |
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Displays the tools to define tile regions by means of contour, see Contour Toolbar. |
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Displays the tools to define tile regions by means of number or size, see Predefined Toolbar. |
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Displays the tools to define tile regions by specifying two or more marker positions, see also Stake Toolbar. |
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Displays the tools to define tile regions automatically by means of the fill factor of the sample carrier, see also Tiles Carrier Toolbar. |
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Positions |
Here you can select which setup you want to be used to set the positions. The corresponding tools are displayed in the top toolbar, see Top Toolbar. |
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Displays the tools to define positions by means of the location, see Positions Location Toolbar. You can add various positions in the Stage View using the mouse. |
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Displays the tools to define positions by means of position arrays, see Position Array Toolbar. You can add various contours for position arrays in the stage view. |
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Displays the tools to define positions automatically on the relevant sample carrier, see also Positions Carrier Toolbar. |
Top Toolbar
Depending on what you have selected on the left toolbar of the Tiles - Advanced Setup, different features to create tiles or positions are displayed. For information on the various top toolbars, see the list below.
See also
Preview Scan Toolbar
Here you can define the settings for a preview scan. Typically a low magnification objective and a channel which protects your sample (e.g. transmitted light) is used. This will give you a low resolution overview of the sample to mark tile regions and/or positions.
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Parameter |
Description |
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Use Experiment Settings |
Uses the settings of the experiment for the preview scan. |
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Channel |
Only available if Use Experiment Settings is deactivated. Displays the channels for the preview scan. If you deactivate Use Experiment Settings, you can deselect individual channels here. |
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Camera Binning |
Only available if Use Experiment Settings is deactivated. Sets the binning of the camera for the preview scan experiment only. The exposure time will be compensated automatically for the preview scan. Note that higher binning will reduce the scan time (due to shorter exposures of the camera), but reduce the image resolution. |
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Delete existing preview images |
Activated: Deletes the already existing preview images before the preview scan is started. |
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Start |
Starts the preview scan to acquire the overview image. |
See also
Tiles Carrier Toolbar
Here you can define the tile regions automatically by means of the fill factor of the sample carrier.
- A sample carrier must have been selected in the Sample Carrier section of the Tiles tool.
- Manually created tile regions and positions (setup by Contour and setup by Predefined) will be deleted if you switch to the setup by Carrier. If you want to combine manual and automatic setup, first use setup by Carrier and then switch to a manual setup. Tile regions that are created automatically by setup by Carrier, are defined to a container and permanently assigned and locked by default, against manual editing. You can unlock the tile regions in the Tiles tool by selecting the desired tile region and unlocking it via the options menu in the tile regions list. You can also unlock all tile regions here if necessary.
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Parameter |
Description |
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Select Sample Carrier |
Only visible if no sample carrier is currently selected. Opens the dialog to select a sample carrier template. |
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Creates a tile region for every selected sample carrier container. |
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Removes the tile region in every selected sample carrier container. |
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Fill Factor |
Here you can enter the fill factor used to fill the selected container. |
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Columns/Rows |
Here you can add single tile regions to a container by defining the number of columns and rows of the tile. The tile region is always placed at the center of the well container. |
See also
Positions Location Toolbar
Here, you can define the positions by means of the location. You can add various positions in the Stage View using the mouse.
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Parameter |
Description |
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Selects an element in the stage view to edit or move it. |
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Adds a new position on the stage view. |
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Keep Tool |
Activated: Keeps the selected tool active. You can use the tool several times without having to reselect it. |
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Current X/Y |
Displays the current stage position (X/Y). |
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Add Position |
Adds a new position at the current stage position. |
See also
Position Array Toolbar
Here you can define the positions by means of position arrays. You can add various contours for position arrays in the stage view.
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Parameter |
Description |
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With this tool you can select an already created position array to move or edit it. |
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With this tool you can draw a rectangular position array. |
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With this tool you can draw an elliptical position array. |
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Keep Tool |
Activated: Keeps the selected tool active. You can use the tool several times in succession without having to reselect it. |
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Distribute Positions by |
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Number |
Activates the input for Number and Bias. |
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Grid |
Activates the input field for an Overlap. |
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Number |
Only visible if Number is selected. Shows the current number of positions that are distributed to newly created position array. Change the number to increase or decrease the number of single positions obtained by a position array. |
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Bias |
Only visible if Number is selected. Adjusts the overall position of the single positions in the position array. |
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None |
The single positions of the position array will be distributed evenly within the array. |
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Center |
The single positions of the position array will mainly be distributed near to the center of the position array. Less positions will be at the edges of the array. |
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Edge |
The positions of the position array will be distributed to the edges of the array. Less positions will be in the center of the array. |
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Random |
Only visible if Number is selected. Activated: The single positions will be distributed randomly within the position array. The overall bias will still be taken into account. |
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Overlap |
Only visible if Grid is selected. Shows the current degree of overlap in % of each position in the array relative to its neighbors. Both positive and negative values are possible. |
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