Cell-type prediction for multiplexed spatial proteomic data.
To run the demo, you will need: #. Python #. A running docker daemon #. The prototype model and example data
Ensure that your docker daemon is running and doesn't require elevated permissions:
docker run hello-world
Create a Python virtual environment and install the necessary dependencies:
python -m venv demo-env
source demo-env/bin/activate # or whichever script is appropriate for your shell
pip install -r requirements.txt
The model is not (yet) publicly available as it is currently under development. For access to the demo data and model prototype, direct inquiries to vanvalenlab@gmail.com.
The model and data should be unpacked in the top-level directory of this repository:
tar -xzf demo_data_model.tar.gz
The demo is available in the form of a markdown-based jupyter notebook. Launch a new session with:
jupyter notebook
Then right-click presentation.md
and select Jupytext Notebook
from the
Open with
menu.