UpSetPlot 0.1

UpSetPlot documentation
============================

|version| |licence| |py-versions|

|issues| |build| |docs| |coverage|

This is another Python implementation of UpSet plots by Lex et al. [Lex2014]_.

It tries to provide a simple, interface backed by an extensible,
object-oriented design.

The basic input format is a `pandas.Series` containing counts
corresponding to set intersection sizes. The index indicates which rows
pertain to which sets, by having multiple boolean indices, like ``example``
in the following::

>>> from upsetplot import generate_data
>>> example = generate_data(aggregated=True)
>>> example # doctest: +NORMALIZE_WHITESPACE
set0 set1 set2
False False False 56
True 283
True False 1279
True 5882
True False False 24
True 90
True False 429
True 1957
Name: value, dtype: int64

Then::

>>> from upsetplot import plot
>>> plot(example) # doctest: +SKIP

makes:

.. image:: http://upsetplot.readthedocs.io/en/latest/_images/sphx_glr_plot_generated_001.png

Why an alternative to py-upset?
-------------------------------

Probably for petty reasons. It appeared `py-upset
<https://github.com/ImSoErgodic/py-upset>`_ was not being maintained. Its
input format was undocumented, inefficient and, IMO, inappropriate. It did not
facilitate showing plots of each set intersection distribution as in Lex et
al's work introducing UpSet plots. Nor did it include the horizontal bar plots
illustrated there. It did not support Python 2. I decided it would be easier to
construct a cleaner version than to fix it.

References
----------

.. [Lex2014] Alexander Lex, Nils Gehlenborg, Hendrik Strobelt, Romain Vuillemot, Hanspeter Pfister,
*UpSet: Visualization of Intersecting Sets*,
IEEE Transactions on Visualization and Computer Graphics (InfoVis '14), vol. 20, no. 12, pp. 1983–1992, 2014.
doi: `doi.org/10.1109/TVCG.2014.2346248 <https://doi.org/10.1109/TVCG.2014.2346248>`_


.. |py-versions| image:: https://img.shields.io/pypi/pyversions/upsetplot.svg
:alt: Python versions supported

.. |version| image:: https://badge.fury.io/py/upsetplot.svg
:alt: Latest version on PyPi
:target: https://badge.fury.io/py/upsetplot

.. |build| image:: https://travis-ci.org/jnothman/UpSetPlot.svg?branch=master
:alt: Travis CI build status
:scale: 100%
:target: https://travis-ci.org/jnothman/UpSetPlot

.. |issues| image:: https://img.shields.io/github/issues/jnothman/UpSetPlot.svg
:alt: Issue tracker
:target: https://github.com/jnothman/UpSetPlot

.. |coverage| image:: https://coveralls.io/repos/github/jnothman/UpSetPlot/badge.svg
:alt: Test coverage
:target: https://coveralls.io/github/jnothman/UpSetPlot

.. |docs| image:: https://readthedocs.org/projects/upsetplot/badge/?version=latest
:alt: Documentation Status
:scale: 100%
:target: https://upsetplot.readthedocs.io/en/latest/?badge=latest

.. |licence| image:: https://img.shields.io/badge/Licence-BSD-blue.svg
:target: https://opensource.org/licenses/BSD-3-Clause