.. NeuroPAL_ID documentation master file, created by
   sphinx-quickstart on Fri Apr 25 12:49:21 2025.
   You can adapt this file completely to your liking, but it should at least
   contain the root `toctree` directive.

=======================================
NeuroPAL_ID Documentation
=======================================

.. toctree::
   :maxdepth: 4

Files & Data
----------------

* `How data is read & written <../datahandling/_html/index.html>`_

* `Image & video volumes <../internal/image_volume/_html/index.html>`_
* `Neurons <../neurons/_html/index.html>`_

Methods
----------------------

* `Generic Methods <../methods/_html/index.html>`_
* `Chunky Methods <../methods/chunky/_html/index.html>`_

Program & System Management
----------------------

* `Information about the program <../internal/program/_html/index.html>`_
* `Interacting with the user's system <../internal/system/_html/index.html>`_
* `Interacting with ZephIR <../wrapper/zephir/_html/index.html>`_

GUI Management
----------------------

Windows
``````````````````````

* `visualize_light AppBase <../gui/visualize_light/_html/index.html>`_
* `Other AppBases (Legacy) <ma../..in/gui/other_windows/_html/index.html>`_

Interfaces
``````````````````````

* `Identification GUI <../gui/identification/_html/index.html>`_
* `Tracking GUI <../gui/tracking/_html/index.html>`_
* `Preprocessing GUI <../gui/preprocessing/_html/index.html>`_
* `Rotation GUI <../gui/rotation/_html/index.html>`_
* `Neuron GUI <../gui/neuron/_html/index.html>`_


Misc
``````````````````````

* `Dialogs <../gui/dialogs/_html/index.html>`_
* `GUI Preferences <../gui/preferences/_html/index.html>`_
* `GUI Handling (Legacy) <../gui/handling/_html/index.html>`_