# panorama.alignment package

## Submodules

## panorama.alignment.align module

```{eval-rst}
.. automodule:: panorama.alignment.align
   :members:
   :undoc-members:
   :show-inheritance:
   :exclude-members: AlignmentConfig, AlignmentError, AlignmentValidationError
```

```{eval-rst}
.. autosummary::
   :toctree: generated
   :template: summary.rst
   :nosignatures:

   AlignmentConfig
   AlignmentError
   AlignmentValidationError
```
## panorama.alignment.cluster module

```{eval-rst}
.. automodule:: panorama.alignment.cluster
   :members:
   :undoc-members:
   :show-inheritance:
   :exclude-members: ClusteringMethod, ClusteringConfig, ClusteringError, ClusteringValidationError
```

```{eval-rst}
.. autosummary::
   :toctree: generated
   :template: summary.rst
   :nosignatures:

   ClusteringMethod
   ClusteringConfig
   ClusteringError
   ClusteringValidationError
```
## panorama.alignment.utils module

```{eval-rst}
.. automodule:: panorama.alignment.utils
   :members:
   :undoc-members:
   :show-inheritance:
   :exclude-members: MMSeqsConfig, PangenomeProcessingError, MMSeqsError
```

```{eval-rst}
.. autosummary::
   :toctree: generated
   :template: summary.rst
   :nosignatures:

   MMSeqsConfig
   PangenomeProcessingError
   MMSeqsError
```