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Welcome to the Pom documentation!
===============================

For questions, reach out to mlast@mrc-lmb.cam.ac.uk, or ask on our `GitHub page <https://github.com/bionanopatterning/Pom>`_. Asking questions on GitHub is preferred, as it allows others to read the Q&A as well.

Table of contents
__________

.. toctree::
   :maxdepth: 3
   :caption: Contents:

   installation
   project_setup
   organelle_segmentation
   exploring_the_results
   context-aware_particle_picking
   area-selective_template_matching
   network_weights

Introduction
__________

The Pom Python module was created as a part of a project to explore many-feature segmentations of large cryoET dataset, and their use in scaling up the application of common cryoET data analyses such as particle picking and template matching. The project is described in detail in our `preprint <https://www.biorxiv.org/content/10.1101/2025.01.16.633326v1>`_, and the segmentation results can be explored `here <https://cryopom.streamlit.app/>`_

In this documentation, we outline the use of Pom in performing the workflow described in the original article.