fetal-diffusion-MRI

A collection of python and BASH scripts used to process and analyse T2w and DWI fetal data.

Pre-processing step 1

File: batch_transform_all

Purpose: Transformation to align DWI to the T2 Space

Pre-processing step 2

File: batch_mask

Purpose: Remove non-brain areas in T2 images using mask (stripping)

Feature extraction

File: Extract_regions

Purpose: Extracting regions of interest - Subplate (SP), Ventricular Zone (VZ), Ganglionic Eminence (GE), Periventricular White Matter (PVWM), Cortex, and White Matter (WM)

Calculate mean intensity values

File: Calculate_average_values

Purpose: Calculate mean intensity values from each region of interest and save to Excel file

Polynomial ridge regression

Z scores for subjects with Ventriculomegaly (VM)