Welcome to the auto-phylo manual!
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.. toctree::
   :maxdepth: 2
   :caption: Auto-Phylo

   overview
   script
   test_data

.. toctree::
   :maxdepth: 2
   :caption: Built-in modules

   modules_1_blast
   modules_2_fasta_processing
   modules_3_alignment
   modules_4_tree_building
   modules_5_model_checking
   modules_6_special

.. toctree::
   :maxdepth: 2
   :caption: References

   references