Mr. Scrub: de-identify those DICOMs

Mr. Scrub (or "MR scrub") is a command line tool to scrub away identifying information from DICOM files.

Table of contents

1. Documentation
2. Installation
3. De-identification profiles
4. Usage

Documentation

There's much more detailed documentation at mrscrub.readthedocs.io.

Installation

Just pip

python -m pip install mrscrub

De-identification profiles

De-identification profiles determine which DICOM fields should be scubbed and how. You can find an example profile here. mrscrub ships with some profiles by default, which you can load with

scrub.py -c NAME [args]

or you can create one yourself and pass in the file name

scrub.py -c ./profile.yaml [args]

Usage

For a simple example, load up one of the saved de-identification profiles along with an -i|--input directory (of DICOM files) and an -o|--output directory where you want to save the scrubbed files

scrub.py -c PBN_v1.0 -i <input dir> -o <output dir>