mythos.input.sequence_dependence
================================

.. py:module:: mythos.input.sequence_dependence

.. autoapi-nested-parse::

   Functions for handling sequence-dependent inputs.



Functions
---------

.. autoapisummary::

   mythos.input.sequence_dependence.read_ss_weights


Module Contents
---------------

.. py:function:: read_ss_weights(file: str) -> dict[str, jax.numpy.ndarray]

   Read and oxDNA sequence-dependent weights file to a dictionary.

   This produces a dictionary of the parameters that are influenced by this
   file, which include stacking parameters:
       - ss_stack_weights (from STCK_X_Y entries)
       - eps_stack_kt_coeff (from STCK_FACT_EPS)

   and hydrogen-bonding parameters:
       - ss_hb_weights (from HYDR_X_Y entries, requires on or both of HYDR_A_T
         or HYDR_T_A and HYDR_G_C or HYDR_C_G to be present)

   File should be of the form KEY=VALUE, one per line, whitespace is ignore and
   float values may use 'f' suffix, but it is not required.