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
`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., & Ishaque, N. (2025).
SpatialLeiden: spatially aware Leiden clustering.
*Genome Biology*, 26(1), 24. https://doi.org/10.1186/s13059-025-03489-7


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

   self
   installation
   guides/index
   api


Indices and tables
==================

-  :ref:`genindex`
-  :ref:`search`