Processing Data

• 1: Command line tools
• 2: Interactive Analysis

1 - Command line tools

XnatUtils

https://github.com/Australian-Imaging-Service/xnatutils

Install xnatutils using

pip3 install xnatutils

Authenticating using .netrc

1. Create an alias token. Or use an existing alias token
2. Create a .netrc file in your home directory with the following details

machine https://xnat.rcc.uq.edu.au
user <your-alias-token>
password <your-alias-secret>

xnatpy

https://xnat.readthedocs.io/en/latest/

Pyxnat

https://pyxnat.github.io/pyxnat

2 - Interactive Analysis

You can access a Jupyter environment directly from XNAT. This allows you to run analysis on your data using familiar tools like Jupyter notebooks.

Start an interactive session

Select a project

Start Jupyter

Select settings

Open jupyter window

Using interactive session

The project data will be accessible as read-only at:

/data/projects