Part 1 - XNAT & Data Import

The purpose of this first part is to get you familiar with the dataset being used, as well as to ensure that everyone is familiar enough with DICOM, XNAT and de-identification to be able to find more information independently.

In 1-1 DICOM & Data Exploration you will download the dataset that we will be using, and then explore its structure. You will look at the images and the metadata using tools on your local machine, and gain an understanding of where PHI may exist in DICOM objects.

Then in 1-2 Getting Started with XNAT you will be introduced to XNAT, the data management and informatics platform that we will be using to manage our data and processing. There you will learn about what XNAT is, how it is used, and how to navigate it. You will also be introduced to how you can interact with XNAT programmatically through the REST API. To end this section, you’ll create a project on XNAT to be used in the rest of the tutorial.

Finally in 1-3 De-identified Data Import you will be introduced to how XNAT parses DICOM data into its database, and how it can facilitate de-identification using built in tools. You will write your own de-identfication script to remove PHI from the IBASH study data as you are uploading your local copy to your XNAT project.