Analysis & Hypothesis Testing
=============================

Functions for hypothesis testing and comparative analysis.

.. currentmodule:: crabml

Comprehensive Testing
---------------------

positive_selection
~~~~~~~~~~~~~~~~~~

.. autofunction:: positive_selection

Site-Class Model Tests
----------------------

m1a_vs_m2a
~~~~~~~~~~

.. autofunction:: m1a_vs_m2a

m7_vs_m8
~~~~~~~~

.. autofunction:: m7_vs_m8

m8a_vs_m8
~~~~~~~~~

.. autofunction:: m8a_vs_m8

Branch-Site Tests
-----------------

branch_site_test
~~~~~~~~~~~~~~~~

.. autofunction:: branch_site_test

Branch Model Tests
------------------

branch_model_test
~~~~~~~~~~~~~~~~~

.. autofunction:: branch_model_test

free_ratio_test
~~~~~~~~~~~~~~~

.. autofunction:: free_ratio_test

Result Classes
--------------

LRTResult
~~~~~~~~~

.. autoclass:: LRTResult
   :members:
   :special-members: __init__

Utility Functions
-----------------

compare_results
~~~~~~~~~~~~~~~

.. autofunction:: compare_results