|Tests| |Formatting| |Coverage| |DOI|
 
.. |Tests| image:: https://github.com/haniffalab/solosis/actions/workflows/tests-python.yml/badge.svg
   :target: https://github.com/haniffalab/solosis/actions/workflows/tests-python.yml
.. |Formatting| image:: https://github.com/haniffalab/solosis/actions/workflows/precommit.yml/badge.svg
   :target: https://github.com/haniffalab/solosis/actions/workflows/precommit.yml
.. |Coverage| image:: https://codecov.io/github/haniffalab/solosis/graph/badge.svg?token=V80FDINJOD
   :target: https://codecov.io/github/haniffalab/solosis
.. |DOI| image:: https://zenodo.org/badge/DOI/10.5281/zenodo.7405818.svg
   :target: https://doi.org/10.5281/zenodo.7405818

Solosis
=======

Solosis is a command line interface for working with single-cell data.

.. toctree::
   :maxdepth: 1
   :caption: Documentation
   :glob:

   setup
   api

.. toctree::
   :maxdepth: 2
   :hidden:
   :caption: More
  
   input
   output
   development

.. toctree::
   :maxdepth: 2
   :hidden:
   :caption: Project Links
  
   Source Code <https://github.com/haniffalab/solosis>
   Issue Tracker <https://github.com/haniffalab/solosis/issues>

.. include:: setup.rst