Focus Map automated setup for simple and multiple tiling

The Automated Focus Map is a software optional feature of the Inscoper I.S. that automatically generates a relief map of the biological sample when performing tiling imaging.

1. To start configuring: Click on Focus Map Start button in Tiling Dimension

   
   

   

   
   

2. The following parameters must be set for both simple and multiple tiling:
   1. Choose the step and size of the stack.
   2. Select an existing pattern.
   3. Select channel to acquire the stack.
   4. Optional: Check Filter unsure position and set parameters:
      1. Filter Radius: filter to smooth the noise by replacing each pixel by the median of the neighbor (0= no smoothing, 1= median on 3x3 square around the pixel, 2= median on 5x5 square around the pixel, …).
      2. BackgroundRoi: ROI for auto-calculating background values.
      3. Background: Mean background value.
      4. Background Delta: Noise amplitude.
      5. Valid Pixels: Percentage needed to validate position.
3. Select the tiling for which you want to create a Focus Map.
4. Click on Start. The system will automatically scan all points to generate the Focus Map. A list of focus points will be displayed. The progression of the focus map by tiling is indicated with a progress bar. When the Focus Map is ready: You will be automatically redirected to the Tiling Dimension screen.
5. Click Confirm to validate and proceed. You can continue to configure your acquisition sequence.