BrainMaker^® user guide

Version 2021

What's new

• New illumination correction tool that reduces the appearance of “seams” in fluorescence whole-slide images.
• New classifiers for cell detection that employ deep learning have been added.
• Image loading, handling, and writing are improved.
• Average and summed image intensities in regions through brain volumes can now be reported and saved
• Region editing in the 3D visualization window is improved
• The cell detection workflow interface now has improved progress reporting and filter strength utilization

Also see the Release Notes.

About BrainMaker software

Learn about the BrainMaker software interface.

Use BrainMaker software to automatically reconstruct high-resolution 3D image data from serial sections in whole slide images.

The BrainMaker workflow guides you through the process of detecting and delineating sections automatically, aligning the sections, and generating 3D image data. No problem if your sections aren't perfect. The workflow includes options for modifying section outlines and adjusting the alignment of sections.