https://github.com/kavrakilab/hla-arena
A customizable environment for the structural modeling and analysis of peptide-HLA complexes
https://github.com/kavrakilab/hla-arena
Last synced: 4 months ago
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A customizable environment for the structural modeling and analysis of peptide-HLA complexes
- Host: GitHub
- URL: https://github.com/kavrakilab/hla-arena
- Owner: KavrakiLab
- License: other
- Created: 2020-05-27T00:20:18.000Z (about 6 years ago)
- Default Branch: master
- Last Pushed: 2020-07-29T16:22:16.000Z (almost 6 years ago)
- Last Synced: 2023-10-20T20:55:30.897Z (over 2 years ago)
- Size: 689 KB
- Stars: 2
- Watchers: 3
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
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README
# HLA-Arena
A customizable environment for the structural modeling and analysis of peptide-HLA complexes
## HLA-Arena installation
1. If you don’t already have it, install Docker.
Docker for Mac or Windows: https://www.docker.com/products/docker-desktop
Docker for Linux: https://docs.docker.com/install
2. In a command prompt, pull the HLA-Arena image from Docker Hub by typing:
docker pull kavrakilab/hla-arena
3. Create a folder in which you want to run the workflows (optional).
mkdir workflows; cd workflows
4. Copy HLA-Arena notebooks and associated data to your local machine by typing:
docker run --rm -v $(pwd):/temp --entrypoint cp kavrakilab/hla-arena /hla_arena_data/data.tar.gz \
/temp/; tar -xzvf data.tar.gz
5. Run HLA-Arena in this folder by typing:
docker run --rm -v $(pwd):/data -p 8888:8888 --entrypoint="" kavrakilab/hla-arena jupyter \
notebook --port=8888 --no-browser --ip=0.0.0.0 --allow-root
6. This should generate a URL with the following format:
http://127.0.0.1:8888/?token=
7. Copy and paste this URL into a browser, and open any available Jupyter notebook (i.e., one of
the files with extension .ipynb). Note that all the data created in the container will be saved inside
sub-directories of the current folder.
8. Check out the [DOCUMENTATION](https://kavrakilab.github.io/hla-arena/DOCUMENTATION.html), also provided alongside the Jupyter notebooks, for
additional information on the workflows and available functions.
Enjoy HLA-Arena!