bm2lab/prep repository overview

Usage:

1. Pull image from dockerhub: docker pull bm2lab/prep
2. Run the image in interactive mode with your dataset: docker run -it -v /your/path/to/dataset/:/home/bioworker/dataset bm2lab/prep /bin/bash
3. Change directory into /home/bioworker/project/iTunes: cd /home/bioworker/project/PREP
4. Download reference data: bash data_download.sh
5. Edit config.yaml and fill the proper path of input files.
6. Run the program with follow commands: python PREP.py RE -i config.yaml

Other information about PREP, please refer to

1. PREP Github repository (https://github.com/bm2-lab/PREP/⁠)
2. Citation PREP: Systematically Characterizing A-to-I RNA Editing Neoantigens in Cancer, Submitted, 2019.