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The PyRanges documentation
==========================
PyRanges is a Python library specifically designed for efficient and intuitive manipulation of genomics data,
particularly genomic intervals (like genes, genomic features, or reads).
The library is optimized for fast querying and manipulation of genomic annotations.

PyRanges is open source, and hosted at github: https://github.com/pyranges/pyranges


Citation
~~~~~~~~

Stovner EB, Sætrom P (2020) PyRanges: efficient comparison of genomic intervals in Python. *Bioinformatics 36(3):918-919*  http://dx.doi.org/10.1093/bioinformatics/btz615


Documentation outline
~~~~~~~~~~~~~~~~~~~~~

#. 🚀 :doc:`Installation instructions <./installation>`
#. 🚀 :doc:`The tutorial <./tutorial>`,  recommended for all new users
#. 🚀 :doc:`The how-to pages <./how_to_pages>`, further below, where functionalities are grouped by topic
#. 🚀 The `API reference <./autoapi/index.html>`_, where all methods are explained in detail.
#. 🚀 :doc:`The developer guide <./developer_guide>`, to follow in order to contribute to PyRanges.

Asking for help
~~~~~~~~~~~~~~~

If you encounter bugs, or the documentation is not enough a cannot accomplish a specific task of interest, or if you'd like new features implemented, open an Issue at github: https://github.com/pyranges/pyranges/issues


.. toctree::
   :maxdepth: 2
   :hidden:
   :caption: Contents:

   installation

   tutorial

   how_to_pages

   developer_guide

       

.. * :ref:`search`
.. * :ref:`modindex`
