BrainMaker Workflow overview

The BrainMaker workflow generates high-resolution 3D volume reconstructions from serial sections imaged with whole slide scanners and research microscopes. The workflow employs innovative computational algorithms to automatically detect the individual sections on each slide and align them to create the full 3D organ reconstruction.

To open the workflow, go to registration>BrainMaker Workflow. Below the list of steps, BrainMaker displays settings specific to the step selected. To return to a previous step, click the name of the step.

Click on any step in the workflow diagram below to jump to the page that describes the step.