/fet2neo_asymmetry

Primary LanguagePython

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