pomoxis package
===============

Submodules
----------

pomoxis.assess\_homopolymers module
-----------------------------------

.. automodule:: pomoxis.assess_homopolymers
   :members:
   :undoc-members:
   :show-inheritance:

pomoxis.bio module
------------------

.. automodule:: pomoxis.bio
   :members:
   :undoc-members:
   :show-inheritance:

pomoxis.catalogue\_errors module
--------------------------------

.. automodule:: pomoxis.catalogue_errors
   :members:
   :undoc-members:
   :show-inheritance:

pomoxis.common\_errors\_from\_bam module
----------------------------------------

.. automodule:: pomoxis.common_errors_from_bam
   :members:
   :undoc-members:
   :show-inheritance:

pomoxis.coverage\_from\_bam module
----------------------------------

.. automodule:: pomoxis.coverage_from_bam
   :members:
   :undoc-members:
   :show-inheritance:

pomoxis.find\_indels module
---------------------------

.. automodule:: pomoxis.find_indels
   :members:
   :undoc-members:
   :show-inheritance:

pomoxis.qscores\_from\_summary module
-------------------------------------

.. automodule:: pomoxis.qscores_from_summary
   :members:
   :undoc-members:
   :show-inheritance:

pomoxis.ref\_seqs\_from\_bam module
-----------------------------------

.. automodule:: pomoxis.ref_seqs_from_bam
   :members:
   :undoc-members:
   :show-inheritance:

pomoxis.stats\_from\_bam module
-------------------------------

.. automodule:: pomoxis.stats_from_bam
   :members:
   :undoc-members:
   :show-inheritance:

pomoxis.subsample\_bam module
-----------------------------

.. automodule:: pomoxis.subsample_bam
   :members:
   :undoc-members:
   :show-inheritance:

pomoxis.summary\_from\_stats module
-----------------------------------

.. automodule:: pomoxis.summary_from_stats
   :members:
   :undoc-members:
   :show-inheritance:

pomoxis.trim\_alignments module
-------------------------------

.. automodule:: pomoxis.trim_alignments
   :members:
   :undoc-members:
   :show-inheritance:

pomoxis.util module
-------------------

.. automodule:: pomoxis.util
   :members:
   :undoc-members:
   :show-inheritance:

Module contents
---------------

.. automodule:: pomoxis
   :members:
   :undoc-members:
   :show-inheritance: