.. ipyrad documentation master file, created by
   sphinx-quickstart on Sun Sep  6 00:44:22 2015.
   You can adapt this file completely to your liking, but it should at least
   contain the root `toctree` directive.

.. include:: global.rst  


ipyrad: interactive assembly and analysis of RADseq data sets
=============================================================

Welcome to ipyrad, an interactive toolkit for assembly and analysis of 
restriction-site associated genomic data sets (e.g., RAD, ddRAD, GBS) for 
population genetic and phylogenetic studies.

In this documentation you can learn more about what ipyrad does 
(:ref:`Features <features>`), and the broader goals behind its design 
(:ref:`Ethos <ethos>`). We provide a detailed :ref:`User Guide<userguide>`
to explain how ipyrad works, as well as numerous example 
:ref:`Tutorials <tutorials>` to make it easy to get started quickly.

Got questions about ipyrad? Join the conversation :ref:`here <gitter>`.


Documentation
=============

.. toctree::
   :maxdepth: 2

   ethos.rst
   features.rst
   installation.rst
   quickguide.rst
   notebooks.rst
   userguide.rst
   tutorials.rst
   citing.rst
   releasenotes.rst
   support.rst
   license.rst

Indices and tables
==================

* :ref:`genindex`
* :ref:`modindex`
* :ref:`search`