racial-disparity-pca

@author Sakin Kirti CWRU Dept of CDS 2023
repository storing code and data for deep learning on 3D prostate cancer MRI

code_matlab

Contains...

1. elastix program for registration of ADC images onto T2W images (elastix folder)
2. matlab script to loop through images and perform registration (elastixRegistration.m)
3. file that tells elastix how to perform the registration (rigid.txt)
4. short script to view a specified image output (viewSlice.m)

code_python

Contains all scripts for the associated project. Note that there are many other scripts in this folder. many different scripts are used for this project. Each of their uses is prefixed by a semi-useful title...

• clean is used to prep the data, from individual dicom slices to nifti files as well as cleaning those nifti files
• preprocess is used to create any overlays and preprocessing that may be needed. Note that registration and standardization are also preprocessing steps, but are written in matlab
• metadata area used to organize the metadata of the nifti files
• organize are scripts meant to organize files and the file structure
• SK00 - SK05 are scripts used for creating HDF5 files and training and testing the SqueezeNet architecture

procedure