Deep Focus

Purpose

Use Deep Focus to visualize an entire image stack in a single plane.

NeuroInfo collapses the focus information from the 3D image onto a single image plane and displays it in the Main NeuroInfo window.

Clicking the deep focus button toggles the display between the Deep Focus view and the default plane-by-plane display of the active image.

How it works

Deep focus identifies the pixels with the highest sharpness value, whereas Maximum / Minimum intensity projection identifies the maximum (or the minimum) intensity value of each pixel along the z axis is projected onto the 2D plane.

See Maximum / Minimum intensity projection for a similar, alternative method.

Procedure

Displaying a Deep Focus view

The Deep Focus button toggles the Deep Focus effect on and off.

  • With an image stack (image file with multiple image planes) open, click the Deep Focus button from the Image ribbon.
  • To view the original image stack again, click the Deep Focus button again.

Saving a Deep Focus view

You can save the Deep Focus image using either of the following equivalent methods:

  1. Go to File > Save As > Image

    Go to File > Save As > Image Stack > Current Plane

    You will get a warning message that you are saving only one image of the image stack; that's exactly what you want to do when saving a Deep Focus view, so click ok to close the warning window.

  2. In the Save As window that opens, indicate the desired file name and location, then click Save.