Tutorial
========



Contents
--------
.. toctree::
    :maxdepth: 2
    
    preprocessing
    tcr_training
    gex_training
    tcr_clustering

Processing 10x Immune Profiling Data
------------------------------------

please refer to `scAtlasVAE documentation <https://scatlasvae.readthedocs.io/en/latest/preprocessing.html>`_ for the tutorial on processing 10x immune profiling data.

TCR Tutorial
------------
Please refer to :doc:`tcr_training` for the tutorial on TCR training and embedding generation.


GEX Tutorial
------------

Please refer to :doc:`gex_training` for the tutorial on GEX training and embedding generation.


TrGx Clustering Tutorial
------------------------

Please refer to :doc:`tcr_clustering` for the tutorial on clustering of TCR and GEX embeddings.