/acpc-align

This app will align a T1w image to the ACPC plane (specifically, the MNI152_T1_1mm template from FSL using a 6 DOF alignment via FSL commands. This protocol was adapted from the HCP Preprocessing Pipeline (https://github.com/Washington-University/HCPpipelines.git). Requires a T1w image input and outputs an acpc_aligned T1w image.

Primary LanguageShellGNU General Public License v3.0GPL-3.0

acpc-align

Purpose

To provide a simple means of ACPC aligning a T1 or T2 (FLAIR) weighted image prior to running further preprocessing steps such as registration and FreeSurfer.

System Dependencies

  1. FSL

  2. make

Installation

git clone https://github.com/neuro-stivenr/acpc-align
cd acpc-align
make

Usage

./acpc-align {T1 or T2} {path to image} [path to output - overwrites input by default]