Installation

citeqc needs Python 3.10 or newer and depends only on NumPy, pandas and SciPy.

pip install citeqc

Check that the command-line tool is on your path:

citeqc --version

Optional extras

Extra	Adds	Needed for
anndata	anndata, mudata	reading .h5mu files with io.from_mudata
test	pytest	running the test suite
docs	MkDocs, Material for MkDocs, mkdocstrings	building this site

pip install 'citeqc[anndata]'

Reading .parquet tables with io.read_matrix also needs pyarrow (pip install pyarrow).

From source

git clone https://github.com/elmasnuryilmaz/citeqc
cd citeqc
pip install -e '.[test,anndata]'
pytest

To build the documentation locally:

pip install -e '.[docs]'
mkdocs serve

Supported versions

Tests run on Python 3.10 to 3.14, and once on Python 3.10 with the oldest dependency releases citeqc claims to support (NumPy 1.23, pandas 1.5, SciPy 1.10).