After selecting Image Acquisition in the Topography tool, the Topography Measurement wizard consist of two steps:

Step 1/2: Setup

This step allows you to choose an experiment or setup imaging parameters for a new image acquisition, e.g. number of tiles, acquisition mode or z-stack creation, see Step 1: Setup.

Note that when you have selected Load Z-Stack in the Topography tool and you start the wizard, this step is not available.

Step 2/2: Z-Stack Acquisition

The second step is Z-Stack Acquisition. The acquisition will be performed automatically. Additionally, you can apply noise cut filtering. Pixels which are effected by the thresholds will be displayed in red (upper threshold) or blue (lower threshold), see Step 2: Z-Stack Acquisition.

The noise cut filtering will be skipped if the checkbox Automatic Noise Cut in the Topography tool is activated. The preset parameters will be immediately applied to the image and the wizard continues with the export to ConfoMap.