# HRCHY-CytoCommunity API Reference

This section introduces the core module and function interface of  **HRCHY-CytoCommunity** 

---
## models
```{eval-rst}
.. autosummary::
   :toctree: generated

    hrchy_cytocommunity.models.HRCHYCytoCommunity.HRCHYCytoCommunity
    hrchy_cytocommunity.models.HRCHYCytoCommunity.HRCHYCytoCommunityGrand
    hrchy_cytocommunity.models.auto_k.HRCHYClusterAutoK

```

## Dataset
```{eval-rst}
.. autosummary::
   :toctree: generated

    hrchy_cytocommunity.models.dataset.SpatialOmicsImageDataset

```

## Preprocessing
```{eval-rst}
.. autosummary::
   :toctree: generated
   
    hrchy_cytocommunity.tools.data_preprocessing.formulate_HRCHYCytoCommunity_input_from_anndata_singlecell
    hrchy_cytocommunity.tools.data_preprocessing.formulate_HRCHYCytoCommunity_input_from_anndata_spot
    hrchy_cytocommunity.tools.data_preprocessing.compute_knn

```

## Visualize
```{eval-rst}
.. autosummary::
   :toctree: generated

    hrchy_cytocommunity.visualization.visualization.load_base_data
    hrchy_cytocommunity.visualization.visualization.vis_scatter_label
    hrchy_cytocommunity.visualization.visualization.vis_heatmap

```