Characterization of dynamic patterns of human fetal to neonatal brain asymmetry with deformation-based morphometry (DBM)

Steger C, Moatti C, Payette K, De Silvestro A, Nguyen TD, Coraj S, Yakoub N, Natalucci G, Kottke R, Tuura R, Knirsch W and Jakab A (2023) Characterization of dynamic patterns of human fetal to neonatal brain asymmetry with deformation-based morphometry. Front. Neurosci. 17:1252850. doi: 10.3389/fnins.2023.1252850

Overview of the scripts

scripts for data preparation

• shavel.sh : to create image with bright background
• flipping.sh : to flip brain images along their axis
• blurring.sh : script to blur JD maps

scripts for image registration

• linear and nonlinear registration in antspy: registration calls for linear and nonlinear registration

scripts for metric calculation and metric extraction

scripts for JD extraction

• asymmetry_generate_JD.py : bashcommand to extract JD map of a registration### script to run asymmetry analysis
• stacking.sh : stacking JD into 4D image
• run_randomise.sh + run_randomise_report.txt : randomise call
• cluster.sh : call to report clusters