What is ``SpatialLeiden``?
==========================

SpatialLeiden is an implementation of
`Multiplex Leiden clustering <https://leidenalg.readthedocs.io/en/stable/multiplex.html>`_
that can be used to cluster spatially resolved omics data.

SpatialLeiden integrates with the `scverse <https://scverse.org/>`_ by leveraging
`scanpy <https://scanpy.readthedocs.io/>`_ and `anndata <https://anndata.readthedocs.io/>`_
but can also be used independently.

Citations
---------

If you are using `spatialleiden` for your research please cite

Müller-Bötticher, N., Sahay, S., Eils, R., and Ishaque, N.
"SpatialLeiden - Spatially-aware Leiden clustering"
bioRxiv (2024) https://doi.org/10.1101/2024.08.23.609349


.. toctree::
   :maxdepth: 1
   :caption: Contents:

   self
   installation
   usage
   api


Indices and tables
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-  :ref:`genindex`
-  :ref:`search`