Installation

For installation of this package you need to have Python 3.10 or newer installed. You can install anndata-fcs with pip:

pip install anndata-fcs

Development

Install development version of anndata-fcs with:

git clone git+https://github.com/harryhaller001/citeseq_to_fcs.git

To setup development environment create python virtual environment:

python3 -m virtualenv venv
source venv/bin/activate

Use make to setup dependencies:

make install

# activate pre-commit
pre-commit install

Run checks with make:

# Run all checks
make check

# Run formatting
make format

# Run unit testing with pytest
make testing

# Run type checks with mypy
make typing

Dependencies

Required dependencies:

• flowio (Documentation: https://flowio.readthedocs.io/en/latest)

• anndata (Documentation: https://anndata.readthedocs.io/en/latest)

• matplotlib (Documentation: https://matplotlib.org/stable/)

Optional dependencies:

• For density plots, scipy is required.