index.rst

Workflows

The workflow (flow) module combines multiple functions from various modules for ease of use to perform a desired task.

For example, a standard reg/seg analysis could look like this:

First perform registration of whole-brain CLARITY data to ARA:

$ miracl flow reg_clar -h

Then perform segmentation and feature extraction of full resolution CLARITY data:

$ miracl flow seg -h

Or structure tensor analysis:

$ miracl flow sta -h

ACE new feature <ace_flow/ace_flow> CLARITY-Allen registration <clarity_registration/clar_reg> STA <sta/sta> CLARITY segmentation <clarity_segmentation/clar_seg>