Optimization API Reference
==============

.. automodule:: demestats
   :no-members:
   :no-special-members:

SFS Optimization
----------------

.. autofunction:: demestats.fit.fit_sfs.fit
.. autofunction:: demestats.fit.plotting_util.plot_sfs_likelihood
.. autofunction:: demestats.fit.plotting_util.plot_sfs_contour
.. placeholder autofunction:: demestats.make_whitening_from_hessian
.. placeholder autofunction:: demestats.pullback_objective
.. placeholder autofunction:: demestats.fit.fit_sfs._compute_sfs_likelihood
.. placeholder autofunction:: demestats.fit.fit_sfs.neg_loglik

ICR Optimization
----------------
.. autofunction:: demestats.fit.fit_icr.get_tree_from_positions_data_efficient
.. autofunction:: demestats.fit.fit_icr.process_data
.. autofunction:: demestats.fit.fit_icr.fit