:mod:`geckopy.experimental`
===========================

.. py:module:: geckopy.experimental


Submodules
----------
.. toctree::
   :titlesonly:
   :maxdepth: 1

   experimental/index.rst
   molecular_weights/index.rst
   relaxation/index.rst


Package Contents
----------------


Functions
~~~~~~~~~

.. autoapisummary::

   geckopy.experimental.limit_proteins
   geckopy.experimental.from_mmol_gDW
   geckopy.experimental.from_copy_number


.. function:: limit_proteins(model: cobra.Model, measurements: pandas.DataFrame)

   Apply proteomics `measurements` to `model`.

   Adapted from
   https://github.com/DD-DeCaF/simulations/blob/devel/src/simulations/modeling/driven.py

   :param model: The enzyme-constrained model.
   :type model: cobra.Model (or geckopy.Model)
   :param measurements: Protein abundances in mmol / gDW.
   :type measurements: pd.DataFrame


.. function:: from_mmol_gDW(model: cobra.Model, processed_proteomics: pandas.DataFrame) -> cobra.Model

   Apply proteomics constraints to model and return the copied EC model.


.. function:: from_copy_number(model: cobra.Model, index: pandas.Series, cell_copies: pandas.Series, stdev: pandas.Series, vol: float, dens: float, water: float) -> cobra.Model

   Convert `cell_copies` to mmol/gDW and apply them to `model`.