This directory contains the synchrotron XCT data from ALS (MicroCT).

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## Enamel Files
Contains all data used for PIV analysis of the microCT scans for different animal teeth. Each animal has it's own folder, and in the folders, you'll find sub-directories for Wolf, Lion, Snow Leopard, Bear, and wild African dog. There is also sub-directories:

## Quiverplots
Contains all quiver plots from the processed clips for PIV. These have no background

# FullStacks
contains the masked stack taken from the full stack of images. This is not the complete stack, but contains all the useable images. Not every image is here, as some stacked images are unusable (such as WAD_Mcerv1-etched30s)

# ProcessedFullStack
Contains the processed full stacks. For a majority, they have had watershed and despeckling done to reduce noise. 

# 2FrameSSubstacks
Contains 2 frame substacks that are used for PIV analysis

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##OpenPIV
Contains all python code used. Most folders in here are for a 3.11 python environment. 

There are two sub-folders:

#Quivercode
Contains the python code to create the quiver plots. testquiver.py loops through all images in PIVframes and saves the plots inside of PIVframes. Testquiver-noloop.py will only run one specified image

#ColoredBands
Contains the code and files to reproduce the colored decussation bands. There is a sub-directory that shows the link between the image with the colored decussation band and the corresponding processed image.