# anno plotting module `anno.pl`

```{eval-rst}
.. module:: vampire.anno.pl
```

```{eval-rst}
.. currentmodule:: vampire.anno.pl
```

## Setting

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

   set_default_plotstyle
```

## Copy Number Variation
```{eval-rst}
.. autosummary::
   :nosignatures:
   :toctree: ../generated/

   waterfall
   waterfall_legend
   copy_number_violin
   copy_number_stacked_violin
```

## Motif Variation Pattern
```{eval-rst}
.. autosummary::
   :nosignatures:
   :toctree: ../generated/

   logo
   motif_msa
```

## Motif Abundance
```{eval-rst}
.. autosummary::
   :nosignatures:
   :toctree: ../generated/

   motif_abundance_heatmap
   motif_abundance_pca
   motif_abundance_pca_variance
```

## Haplotype Clustering
```{eval-rst}
.. autosummary::
   :nosignatures:
   :toctree: ../generated/

   haplotype_distance_heatmap
   haplotype_leiden_res_scan
```

## Multi-track Genomic Visualization
```{eval-rst}
.. autosummary::
   :nosignatures:
   :toctree: ../generated/

   tracksplot
```

## Basic Plot Utilities
```{eval-rst}
.. autosummary::
   :nosignatures:
   :toctree: ../generated/

   logo_from_matrix
   heatmap_from_matrix
```