Tutorials
===========

.. toctree::
    :maxdepth: 2
    :hidden:

    tutorials/sincei_tutorial_sortChIC
    tutorials/sincei_tutorial_10x
    tutorials/sincei_tutorial_10xATAC
    tutorials/sincei_tutorial_10xRNA
    [Python] Counting reads from bam files with ReadCounter <tutorials/ReadCounter_tutorial>
    [Python] Pre-process single-cell methylome data with sincei <tutorials/snmCATseq_preprocessing>
    [Python] GLM-PCA analysis of single-cell methylome data <tutorials/snmCATseq_glmPCA_analysis>    

Tutorials for using sincei on the command line
----------------------------------------------

* :doc:`tutorials/sincei_tutorial_sortChIC`
* :doc:`tutorials/sincei_tutorial_10x`
* :doc:`tutorials/sincei_tutorial_10xATAC`
* :doc:`tutorials/sincei_tutorial_10xRNA`

Tutorials for the sincei python package
---------------------------------------

* :doc:`tutorials/ReadCounter_tutorial`
* :doc:`tutorials/snmCATseq_preprocessing`
* :doc:`tutorials/snmCATseq_glmPCA_analysis`

..
    [Python] Clustering multimodal data with sincei <tutorials/clustering_tutorial>
    * :doc:`tutorials/clustering_tutorial`