# API

## Graph

```{eval-rst}
.. module:: cellcharter.gr
.. currentmodule:: cellcharter

.. autosummary::
    :toctree: generated

    gr.aggregate_neighbors
    gr.nhood_enrichment
    gr.remove_long_links
    gr.remove_intra_cluster_links

```

## Tools

```{eval-rst}
.. module:: cellcharter.tl
.. currentmodule:: cellcharter

.. autosummary::
    :toctree: generated

    tl.Cluster
    tl.ClusterAutoK
    tl.TRVAE
```

## Plotting

```{eval-rst}
.. module:: cellcharter.pl
.. currentmodule:: cellcharter

.. autosummary::
    :toctree: generated

    pl.autok_stability
    pl.nhood_enrichment
    pl.proportion
```