API
===

.. toctree::
   :maxdepth: 3
   :caption: Contents:

.. automodule:: metacov
   :members:

metacov.compat
--------------
.. automodule:: metacov.compat
   :members:

metacov.pileup
--------------
.. automodule:: metacov.pileup
   :members:

metacov.scan
------------
.. automodule:: metacov.scan
   :members:

metacov.simulate
----------------
.. automodule:: metacov.simulate
   :members:

metacov.blast
-------------
.. automodule:: metacov.blast
   :members:

metacov.util
------------
.. automodule:: metacov.util
   :members:

metacov.cli
-----------
.. automodule:: metacov.cli
   :members:

metacov.pyfq
------------
.. automodule:: metacov.pyfq
   :members: