.. title:: Pylake: Data analysis for single-molecule optical tweezer data

.. container:: lkheader

    .. image:: logo_notext.png
        :class: lklogo

    Pylake is a Python package for analyzing single-molecule optical tweezer data.
    The :doc:`tutorial/index` section is a good place to start.
    It gives a good overview of the most important features with lots of code examples.
    The source code repository is `located on Github <https://github.com/lumicks/pylake>`_
    where you can also post any questions, comments or issues that you might have. 

.. admonition:: Get started

    To get started check out the :doc:`Installation Guide <install>` and watch the
    :doc:`What's New<whatsnew/index>` section to keep up to date with all of the latest
    features!

.. admonition:: Citing Pylake

    If you wish to publish results produced with this package, please mention the package name and cite the Zenodo DOI for this project: https://doi.org/10.5281/zenodo.4280788.
    You'll find a "Cite as" section at the bottom right of the Zenodo page. 
    You can select a citation style from the dropdown menu or export the data in BibTeX and similar formats. 

.. to build html, go in anaconda prompt and type python -m sphinx -b html docs build

.. toctree::
    :hidden:
    :titlesonly:

    changelog
    whatsnew/index

.. toctree::
    :maxdepth: 2

    install

.. toctree::
    :caption: User guide
    :maxdepth: 2

    tutorial/index
    examples/index
    api

.. toctree::
    :caption: Fundamentals
    :maxdepth: 1

    theory/diffusion/index
    theory/force_calibration/index

.. toctree::
    :caption: Literature
    :maxdepth: 2

    zrefs.rst

.. only:: html

    * :ref:`genindex`


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