Installation
============

From source
-----------

.. code-block:: bash

   git clone https://github.com/chansigit/sjanpy.git
   cd sjanpy
   pip install .

For ML pipeline support (``sjanpy.ml``):

.. code-block:: bash

   pip install ".[ml]"

For development:

.. code-block:: bash

   pip install -e ".[dev]"

Dependencies
------------

sjanpy requires Python >= 3.8 and the following packages:

- numpy
- pandas
- scipy
- matplotlib
- seaborn
- scanpy
- anndata
- adjustText
- statsmodels
- scikit-learn
- plotly

Optional (for ``sjanpy.ml``):

- torch
- h5py
- safetensors