## Informatics: `inform`

## Informatics module diagram
```{image} ../_static/smftools_informatics_diagram.png
:width: 1000px
```

Processes raw sequencing data to load an adata object.

```{eval-rst}
.. autosummary::
   :toctree: generated/informatics
   
   smftools.informatics.bam_functions
   smftools.informatics.basecalling
   smftools.informatics.bed_functions
   smftools.informatics.binarize_converted_base_identities
   smftools.informatics.complement_base_list
   smftools.informatics.converted_BAM_to_adata
   smftools.informatics.fasta_functions
   smftools.informatics.h5ad_functions
   smftools.informatics.modkit_extract_to_adata
   smftools.informatics.modkit_functions
   smftools.informatics.ohe
   smftools.informatics.pod5_functions
   smftools.informatics.run_multiqc
```

```{eval-rst}
.. automodule:: smftools.informatics
   :no-members:
   :show-inheritance:
```


### Diagram of final steps of Direct SMF workflow
```{image} ../_static/modkit_extract_to_adata.png
:width: 1000px
```

### Diagram of final steps of Conversion SMF workflow
```{image} ../_static/converted_BAM_to_adata.png
:width: 1000px
```