ivy package
===========

Subpackages
-----------

.. toctree::

    ivy.chars
    ivy.sim
    ivy.vis

Submodules
----------

ivy.ages module
---------------

.. automodule:: ivy.ages
    :members:
    :undoc-members:
    :show-inheritance:

ivy.align module
----------------

.. automodule:: ivy.align
    :members:
    :undoc-members:
    :show-inheritance:

ivy.ascii module
----------------

.. automodule:: ivy.ascii
    :members:
    :undoc-members:
    :show-inheritance:

ivy.autocollapse module
-----------------------

.. automodule:: ivy.autocollapse
    :members:
    :undoc-members:
    :show-inheritance:

ivy.bipart module
-----------------

.. automodule:: ivy.bipart
    :members:
    :undoc-members:
    :show-inheritance:

ivy.birthdeath module
---------------------

.. automodule:: ivy.birthdeath
    :members:
    :undoc-members:
    :show-inheritance:

ivy.contrasts module
--------------------

.. automodule:: ivy.contrasts
    :members:
    :undoc-members:
    :show-inheritance:

ivy.data module
---------------

.. automodule:: ivy.data
    :members:
    :undoc-members:
    :show-inheritance:

ivy.demo module
---------------

.. automodule:: ivy.demo
    :members:
    :undoc-members:
    :show-inheritance:

ivy.examples module
-------------------

.. automodule:: ivy.examples
    :members:
    :undoc-members:
    :show-inheritance:

ivy.genbank module
------------------

.. automodule:: ivy.genbank
    :members:
    :undoc-members:
    :show-inheritance:

ivy.interactive module
----------------------

.. automodule:: ivy.interactive
    :members:
    :undoc-members:
    :show-inheritance:

ivy.ivy_completers module
-------------------------

.. automodule:: ivy.ivy_completers
    :members:
    :undoc-members:
    :show-inheritance:

ivy.layout module
-----------------

.. automodule:: ivy.layout
    :members:
    :undoc-members:
    :show-inheritance:

ivy.layout_polar module
-----------------------

.. automodule:: ivy.layout_polar
    :members:
    :undoc-members:
    :show-inheritance:

ivy.ltt module
--------------

.. automodule:: ivy.ltt
    :members:
    :undoc-members:
    :show-inheritance:

ivy.matrix module
-----------------

.. automodule:: ivy.matrix
    :members:
    :undoc-members:
    :show-inheritance:

ivy.newick module
-----------------

.. automodule:: ivy.newick
    :members:
    :undoc-members:
    :show-inheritance:

ivy.nexus module
----------------

.. automodule:: ivy.nexus
    :members:
    :undoc-members:
    :show-inheritance:

ivy.ordereddict module
----------------------

.. automodule:: ivy.ordereddict
    :members:
    :undoc-members:
    :show-inheritance:

ivy.pyperclip module
--------------------

.. automodule:: ivy.pyperclip
    :members:
    :undoc-members:
    :show-inheritance:

ivy.r_funcs module
------------------

.. automodule:: ivy.r_funcs
    :members:
    :undoc-members:
    :show-inheritance:

ivy.sequtil module
------------------

.. automodule:: ivy.sequtil
    :members:
    :undoc-members:
    :show-inheritance:

ivy.storage module
------------------

.. automodule:: ivy.storage
    :members:
    :undoc-members:
    :show-inheritance:

ivy.tree module
---------------

.. automodule:: ivy.tree
    :members:
    :undoc-members:
    :show-inheritance:

ivy.treebase module
-------------------

.. automodule:: ivy.treebase
    :members:
    :undoc-members:
    :show-inheritance:

ivy.treegraph module
--------------------

.. automodule:: ivy.treegraph
    :members:
    :undoc-members:
    :show-inheritance:

ivy.treegraph_experimental module
---------------------------------

.. automodule:: ivy.treegraph_experimental
    :members:
    :undoc-members:
    :show-inheritance:

ivy.ubio module
---------------

.. automodule:: ivy.ubio
    :members:
    :undoc-members:
    :show-inheritance:


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

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