Let’s do the time warp: diffeomorphic analysis of human white matter pathways over the first year of life

This project examines how infant white matter pathways change shape over time, testing the hypothesis that local expansion is greatest near tract endpoints and lowest in tract cores. Using paired V02 (0–2 months) and V03 (3–9 months) scans from six HBCD infants, complementary anatomical and tract-mask registration pipelines measure along-tract expansion and contraction and assess agreement between the resulting tract deformations.

Scripts

Script	Role
dsi_recon_diff_morph.py	DSI Studio GQI reconstruction
T2w_diff_morph_preproc.sh	T2w image preprocessing
T2w_diff_morph_4.py	Anatomical registration and along-tract morphometry
tract2tract_diff_morph_4.py	Tract-mask registration and along-tract morphometry
run_batch_diff_morph.sh	Batch runner for both registration pipelines
plot_logj_figures_8.py	Group analyses and figures
make_niivue_figures.py	Interactive 3D figures