DiffusionKit处理DTI得到FA、MD数据

1. 下载

http://www.brainnetome.org/toolkit/201710/t20171023_385323.html

2. 安装

tar zxvf DiffusionKitSetup-x86_64-v1.4-r161127.tar.gz
export PATH=$PATH:`pwd`/DiffusionKitSetup-x86_64-v1.4-r161127/bin

3.添加到环境变量

export PATH=$PATH:/your/path/to/diffusionkit

4. 下载示例代码命名process_primary.sh

#!/usr/bin/env bash
# This batch script is used to construct structural brain networks for a group of subjects using diffusion MRI data.
# The example data and files used in this script can be downloaded from http://diffusion.brainnetome.org/en/latest/download.html
# To run this script, you have to download the list file (list.txt), DWI data (Subject01 and Subject02) and atlas directory from the above link. 
# However, if you want to download only one subject data for saving time, you should delete one line of the list.txt file accordingly. 
# When you download all the files, you can get three compressed files (atlas.tar.gz, sub01.tar.gz and sub02.tar.gz) and a text file (list.txt) which
# contains subject ID. You'd better to make a directory (.e.g example) to run this tutorial script. And copy the three compressed files and list.txt
# into the example directory. The following steps should be done in the example directory. Uncompress the three conpressed file respectively. 
# Finally, your "example" should be as follows.
#path/example
#     ├── atlas
#     │   ├── aal.nii.gz
#     │   ├── aal.nii.lut
#     │   ├── aal.nii.txt
#     │   ├── aal_roi_024.txt
#     │   ├── aal_roi_090.txt
#     │   ├── BN_Atlas_246_1mm.nii.gz
#     │   ├── BN_Atlas_246.txt
#     │   └── ch2bet.nii.gz
#     ├── list.txt
#     ├── process_advanced.sh
#     ├── process_primary.sh
#     ├── sub01
#     │   ├── dwi.bval
#     │   ├── dwi.bvec
#     │   ├── dwi.nii.gz
#     │   └── t1.nii.gz
#     └── sub02
#         ├── dwi.bval
#         ├── dwi.bvec
#         ├── dwi.nii.gz
#         └── t1.nii.gz

# Now you can run this script in example directory.

# By Sangma Xie, Mar. 10, 2016 

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