.. iss-preprocess documentation master file, created by
   sphinx-quickstart on Fri Feb 17 08:42:14 2023.
   You can adapt this file completely to your liking, but it should at least
   contain the root `toctree` directive.

Welcome to iss-preprocess's documentation!
==========================================

.. toctree::
   :maxdepth: 2
   :caption: Contents:

   getting_started
   project_and_average
   registration
   call
   correction
   bleedthrough
   sequencing
   hybridisation
   segmentation
   detect_mcherry

.. toctree::
   :maxdepth: 3
   :caption: API reference:

   iss_preprocess
   flowchart_legends


.. mdinclude:: ../../README.md

Indices and tables
==================

* :ref:`genindex`
* :ref:`modindex`
* :ref:`search`