api_reference.rst

API reference

This page provides an auto-generated summary of the APIs used for pharynx analysis.

Experiment

.. py:currentmodule:: pharedox.experiment

.. automodule:: pharedox.experiment

.. autoclass:: Experiment
    :members:

Pharynx IO

This module coordinates loading data from and saving data to disk.

.. automodule:: pharedox.io
    :members:
    :undoc-members:

Image Processing

This module contains the code for processing images, including segmentation, midline calculation and measurement, translation, binary morphological operations, etc.

.. automodule:: pharedox.image_processing
    :members:

Profile Processing

This module contains the code for processing the measured profiles, including functions for transforming ratios to OxD and E, trimming profiles, and registering profiles.

.. automodule:: pharedox.profile_processing
    :members:

Plotting

This module contains plotting code

.. automodule:: pharedox.plots
    :members:

Utils

.. automodule:: pharedox.utils
    :members:

Data Analysis

.. automodule:: pharedox.data_analysis
    :members: