.. _API:

API Reference
=============

Delay differential equations
----------------------------
.. currentmodule:: biocircuits

.. autosummary::
   :toctree: generated
   :nosignatures:

   ddeint


Reaction diffusion equations
----------------------------
.. currentmodule:: biocircuits

.. autosummary::
   :toctree: generated
   :nosignatures:

   rd_solve
   constant_diff_coeffs


Stochastic simulation algorithms
--------------------------------
.. currentmodule:: biocircuits

.. autosummary::
   :toctree: generated
   :nosignatures:

   gillespie_ssa


Visualization functions
----------------------------
.. currentmodule:: biocircuits

.. autosummary::
   :toctree: generated
   :nosignatures:

   phase_portrait
   streamplot
   xyt_plot
   interactive_xy_plot


Regulatory functions
----------------------------
.. currentmodule:: biocircuits

.. autosummary::
   :toctree: generated
   :nosignatures:

   act_hill
   rep_hill
   aa_and
   aa_or
   aa_or_single
   rr_and
   rr_or
   rr_and_single
   ar_and
   ar_or
   ar_and_single
   ar_or_single



Interactive applications
----------------------------
.. currentmodule:: biocircuits.apps

.. autosummary::
   :toctree: generated/apps
   :nosignatures:

   ffl_app
   promiscuous_222_app