.. _workflow:

==============
Workflow guide
==============

.. toctree::
    :hidden:

    workflow/prepare
    workflow/implement
    workflow/analyze

Every ONTOLOGY run passes through three stages in order. This section documents
each stage screen by screen, for both the **DNA Barcoding** and **Metabarcoding**
workflows; where the two diverge, they are shown as separate subsections.

* :ref:`Prepare <prepare>` — establish the run, and enter sample metadata
* :ref:`Implement <implement>` — molecular laboratory protocols
* :ref:`Analyze <analyze>` — bioinformatic analysis, summaries, and upload