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.. _tutorials:
**********************
Tutorials
**********************
.. currentmodule:: HTSeq
This page contains a few tutorials to help you familiarize yourself with ``HTSeq``, including ``htseq-count`` and its barcode sibiling ``htseq-count-barcodes``.
Parsers
--------
- :ref:`tutorial_fastx`: Simple tutorial on hadling fasta and fastq files with ``HTSeq``.
- :ref:`tutorial_bam`: Simple tutorial on handling SAM/BAM/CRAM files.
- :ref:`step_vs_stretch`: Explanation of the different data structures used to store sparse genomic data.
Workflows
---------
- :ref:`tss`: TSS example for the ``HTSeq`` API
- :ref:`tutorial_highc`: Chromatin conformation example for the ``HTSeq`` API
Scripts
-------
- :ref:`tutorial_htseq`: Explanation of the inner workings of ``htseq-count``
- :ref:`tutorial_htseq_exon`: Calling ``htseq-count`` at the exon level.
.. toctree::
:glob:
:maxdepth: 1
:titlesonly:
:hidden:
tutorials/fastx_reader
tutorials/bam_reader
tutorials/step_vs_stretch_vector
tutorials/tss
tutorials/highc
tutorials/exon_example
tutorials/tutorial_exon_level
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