Publications in the Codex are listed in (approximate) reverse chronological order.
Some programs from other software are listed here, because they were
included in the processing. In such cases, the other software package
is noted, for example with FreeSurfer:
Many thanks to the authors who have made their coding/scripting work available for general benefit.
Below are lists of main programs used in Codex scripts (some of the smaller/incidental programs are not used here) and also study keywords. Searching with these might/should make it easier to find examples of interest. These lists will likely grow over time.
Main Program List
Study keywords by category
task-block, task-event, resting, naturalistic
EPI, dual phase (AP-PA)
MPRAGE, T1w, T2w, T1ma
human, nonhuman primate, macaque, rat, simulation
Subject age group
prenatal, newborn, infant, child, juvenile, adult, senior
MNI, Talairach, Haskins-ped, native,
Template align method
Geometry of final analysis
volumetric (default), surface
Tissue segmentation method
ANATICOR, fANATICOR, PCA, WM+Vent