├── .bumpversion.cfg ├── .github └── workflows │ └── test.yml ├── .gitignore ├── .travis.yml ├── Joyplot.ipynb ├── LICENSE ├── MANIFEST.in ├── README.md ├── build_and_publish.sh ├── data ├── CFR.csv ├── Players.csv ├── Seasons_Stats.csv ├── daily_temp.csv └── iris.csv ├── joypy ├── __init__.py └── joyplot.py ├── setup.py ├── temperatures.png └── tests └── test_joyplot.py /.bumpversion.cfg: -------------------------------------------------------------------------------- 1 | [bumpversion] 2 | commit = True 3 | tag = True 4 | current_version = 0.2.6 5 | parse = (?P\d+)\.(?P\d+)\.(?P\d+) 6 | serialize = {major}.{minor}.{patch} 7 | 8 | [bumpversion:file:setup.py] 9 | 10 | [bumpversion:file:joypy/__init__.py] 11 | -------------------------------------------------------------------------------- /.github/workflows/test.yml: -------------------------------------------------------------------------------- 1 | # This workflow will install Python dependencies, run tests and lint with a single version of Python 2 | # For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions 3 | 4 | name: tests 5 | 6 | on: 7 | push: 8 | branches: [ master ] 9 | pull_request: 10 | branches: [ master ] 11 | 12 | jobs: 13 | test: 14 | runs-on: ubuntu-latest 15 | strategy: 16 | matrix: 17 | python-version: ['3.6', '3.7', '3.8', '3.9', '3.10'] 18 | steps: 19 | - uses: actions/checkout@v2 20 | - name: Set up Python ${{ matrix.python-version }} 21 | uses: actions/setup-python@v2 22 | with: 23 | python-version: ${{ matrix.python-version }} 24 | - name: Install pytest 25 | run: | 26 | python -m pip install --upgrade pip 27 | pip install pytest 28 | - name: Install joypy 29 | run: | 30 | pip install . 31 | - name: Test with pytest 32 | run: | 33 | pytest 34 | -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- 1 | # Byte-compiled / optimized / DLL files 2 | __pycache__/ 3 | *.py[cod] 4 | *$py.class 5 | 6 | # C extensions 7 | *.so 8 | 9 | # Distribution / packaging 10 | .Python 11 | env/ 12 | build/ 13 | develop-eggs/ 14 | dist/ 15 | downloads/ 16 | eggs/ 17 | .eggs/ 18 | lib/ 19 | lib64/ 20 | parts/ 21 | sdist/ 22 | var/ 23 | wheels/ 24 | *.egg-info/ 25 | .installed.cfg 26 | *.egg 27 | 28 | # PyInstaller 29 | # Usually these files are written by a python script from a template 30 | # before PyInstaller builds the exe, so as to inject date/other infos into it. 31 | *.manifest 32 | *.spec 33 | 34 | # Installer logs 35 | pip-log.txt 36 | pip-delete-this-directory.txt 37 | 38 | # Unit test / coverage reports 39 | htmlcov/ 40 | .tox/ 41 | .coverage 42 | .coverage.* 43 | .cache 44 | nosetests.xml 45 | coverage.xml 46 | *.cover 47 | .hypothesis/ 48 | 49 | # Translations 50 | *.mo 51 | *.pot 52 | 53 | # Django stuff: 54 | *.log 55 | local_settings.py 56 | 57 | # Flask stuff: 58 | instance/ 59 | .webassets-cache 60 | 61 | # Scrapy stuff: 62 | .scrapy 63 | 64 | # Sphinx documentation 65 | docs/_build/ 66 | 67 | # PyBuilder 68 | target/ 69 | 70 | # Jupyter Notebook 71 | .ipynb_checkpoints 72 | 73 | # pyenv 74 | .python-version 75 | 76 | # celery beat schedule file 77 | celerybeat-schedule 78 | 79 | # SageMath parsed files 80 | *.sage.py 81 | 82 | # dotenv 83 | .env 84 | 85 | # virtualenv 86 | .venv 87 | venv/ 88 | ENV/ 89 | 90 | # Spyder project settings 91 | .spyderproject 92 | .spyproject 93 | 94 | # Rope project settings 95 | .ropeproject 96 | 97 | # mkdocs documentation 98 | /site 99 | 100 | # mypy 101 | .mypy_cache/ 102 | -------------------------------------------------------------------------------- /.travis.yml: -------------------------------------------------------------------------------- 1 | language: python 2 | python: 3 | - "3.5" 4 | - "3.6" 5 | - "3.7" 6 | - "3.8" 7 | - "3.9" 8 | install: 9 | - pip install . 10 | script: 11 | - pytest 12 | os: 13 | - linux 14 | -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- 1 | MIT License 2 | 3 | Copyright (c) 2017 Leonardo Taccari 4 | 5 | Permission is hereby granted, free of charge, to any person obtaining a copy 6 | of this software and associated documentation files (the "Software"), to deal 7 | in the Software without restriction, including without limitation the rights 8 | to use, copy, modify, merge, publish, distribute, sublicense, and/or sell 9 | copies of the Software, and to permit persons to whom the Software is 10 | furnished to do so, subject to the following conditions: 11 | 12 | The above copyright notice and this permission notice shall be included in all 13 | copies or substantial portions of the Software. 14 | 15 | THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR 16 | IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, 17 | FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE 18 | AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER 19 | LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, 20 | OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE 21 | SOFTWARE. 22 | -------------------------------------------------------------------------------- /MANIFEST.in: -------------------------------------------------------------------------------- 1 | include README.md 2 | include LICENSE 3 | -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- 1 | # JoyPy 2 | 3 | [![PyPI version](https://badge.fury.io/py/joypy.svg)](https://badge.fury.io/py/joypy) [![python version](https://img.shields.io/badge/python-3.5+-blue.svg)](https://www.python.org/download/releases/3.5.0/) ![build status](https://github.com/leotac/joypy/actions/workflows/test.yml/badge.svg) [![License: MIT](https://img.shields.io/badge/License-MIT-yellow.svg)](https://opensource.org/licenses/MIT) [![Downloads](https://pepy.tech/badge/joypy)](https://pepy.tech/project/joypy) 4 | 5 | 6 | JoyPy is a one-function Python package based on matplotlib + pandas with a single purpose: drawing joyplots (a.k.a. ridgeline plots). 7 | 8 | A joyplot. 9 | 10 | The code for JoyPy borrows from the code for kdes in `pandas.plotting`, and uses a couple 11 | of utility functions therein. 12 | 13 | What are joyplots? 14 | --- 15 | Joyplots are stacked, partially overlapping density plots, simple as that. They are a nice way to plot data 16 | to visually compare distributions, especially those that change across one dimension (e.g., over time). 17 | Though hardly a new technique, they have become very popular lately thanks to the R package [ggjoy](https://github.com/clauswilke/ggjoy) 18 | (which is much better developed/maintained than this one -- and I strongly suggest you use that if you can use R and ggplot.) 19 | **Update**: the ggjoy package has now been renamed [ggridges](https://github.com/clauswilke/ggridges). 20 | 21 | Why are they called joyplots? 22 | --- 23 | If you don't know Joy Division, you are lucky: you can still listen to them for the first time! 24 | Here's a hint: google ["Unknown Pleasures"](https://www.youtube.com/watch?v=fhCLalLXHP4). 25 | This kind of plot is now also known as *ridgeline plot*, since the original name is controversial. 26 | 27 | Documentation and examples 28 | -------- 29 | 30 | JoyPy has no real documentation. 31 | You're strongly encouraged to take a look at this [jupyter notebook](Joyplot.ipynb) with a growing number of examples. 32 | Similarly, github issues may contain some wisdom :-) 33 | 34 | A minimal example is the following: 35 | ```python 36 | import joypy 37 | import pandas as pd 38 | 39 | iris = pd.read_csv("data/iris.csv") 40 | fig, axes = joypy.joyplot(iris) 41 | ``` 42 | 43 | By default, `joypy.joyplot()` will draw joyplot with a density subplot for each numeric column in the dataframe. The density is obtained with the `gaussian_kde` function of scipy. 44 | 45 | Note: `joyplot()` returns n+1 axes, where n is the number of visible rows (subplots). 46 | Each subplot has its own axis, while the last axis (`axes[-1]`) is the one that is used for things such as plotting the background or changing xticks, and is the one you might need to play with in case you want to manually tweak something. 47 | 48 | 49 | Dependencies 50 | ------------ 51 | 52 | - Python 3.5+ 53 | Compatibility with python 2.7 has been dropped with release 0.2.0. 54 | 55 | - [numpy](http://www.numpy.org/) 56 | - [scipy](http://www.scipy.org/) >= 0.11 57 | - [matplotlib](http://matplotlib.org/) 58 | - [pandas](http://pandas.pydata.org/) >= 0.20 **Warning**: compatibility with pandas >= 0.25 requires joypy >= 0.2.1 59 | 60 | 61 | Not sure what are the oldest supported versions. 62 | As long as you have somewhat recent versions, you should be fine. 63 | 64 | Installation 65 | ------ 66 | 67 | It's actually on PyPI, because why not: 68 | 69 | pip install joypy 70 | 71 | To install from github, run: 72 | 73 | git clone git@github.com:leotac/joypy.git 74 | cd joypy 75 | pip install . 76 | 77 | License 78 | ------- 79 | 80 | Released under the MIT license. 81 | 82 | Disclaimer + contributing 83 | ----- 84 | 85 | This is just a sunday afternoon hack, so no guarantees! If you want to contribute or just copy/fork, feel free to. 86 | -------------------------------------------------------------------------------- /build_and_publish.sh: -------------------------------------------------------------------------------- 1 | #!/bin/bash 2 | 3 | set -e 4 | rm -rf dist 5 | bumpversion patch #major minor patch - bump version in all files 6 | 7 | python setup.py sdist bdist_wheel --universal 8 | twine upload dist/**tar.gz dist/**whl 9 | rm -rf dist 10 | -------------------------------------------------------------------------------- /data/CFR.csv: -------------------------------------------------------------------------------- 1 | date,G,ratio 2 | 2021-07-01,0,0.016220294228592985 3 | 2021-07-01,1,0.02550010991426687 4 | 2021-07-01,2,0.05702436495593572 5 | 2021-07-01,3,0.12469437652811735 6 | 2021-07-01,4,0.021969080553295363 7 | 2021-07-01,5,0.0009332711152589826 8 | 2021-07-01,6,0.03268551236749116 9 | 2021-07-01,7,0.0 10 | 2021-07-01,8,0.01443620756925478 11 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2021-08-30,8,0.007434197307615028 1811 | 2021-08-30,9,0.0027218290691344584 1812 | 2021-08-30,10,0.0230212547723517 1813 | 2021-08-30,11,0.0047422680412371136 1814 | 2021-08-30,12,0.0032482363091914934 1815 | 2021-08-30,13,0.0068822586321510976 1816 | 2021-08-30,14,0.008840010787809775 1817 | 2021-08-30,15,0.0 1818 | 2021-08-30,16,-0.045987690163744044 1819 | 2021-08-30,17,0.010365949426731583 1820 | 2021-08-30,18,0.0021714403887912316 1821 | 2021-08-30,19,0.0024398745207389336 1822 | 2021-08-30,20,0.003674969375255207 1823 | 2021-08-30,21,0.006892230576441102 1824 | 2021-08-30,22,0.0 1825 | 2021-08-30,23,0.003933830946136776 1826 | 2021-08-30,24,0.0 1827 | 2021-08-30,25,0.0 1828 | 2021-08-30,26,0.0029498525073746312 1829 | 2021-08-30,27,0.001859799713876967 1830 | 2021-08-30,28,0.007155815359806491 1831 | 2021-08-30,29,0.0035641547861507126 1832 | 2021-08-31,0,0.006150578006125876 1833 | 2021-08-31,1,0.005482803933118855 1834 | 2021-08-31,2,0.006759083864301705 1835 | 2021-08-31,3,0.008027443059134916 1836 | 2021-08-31,4,0.005244440442963897 1837 | 2021-08-31,5,0.002639369404715198 1838 | 2021-08-31,6,0.004056566567130543 1839 | 2021-08-31,7,0.0 1840 | 2021-08-31,8,0.007386035776110791 1841 | 2021-08-31,9,0.003085973287043734 1842 | 2021-08-31,10,0.02334287601849813 1843 | 2021-08-31,11,0.005239769184851098 1844 | 2021-08-31,12,0.002849462365591398 1845 | 2021-08-31,13,0.007354954813974415 1846 | 2021-08-31,14,0.009171900102234556 1847 | 2021-08-31,15,0.0 1848 | 2021-08-31,16,-0.0441811538035655 1849 | 2021-08-31,17,0.010365949426731583 1850 | 2021-08-31,18,0.0021855534914217026 1851 | 2021-08-31,19,0.0028192371475953566 1852 | 2021-08-31,20,0.00379979035639413 1853 | 2021-08-31,21,0.008126934984520124 1854 | 2021-08-31,22,0.0 1855 | 2021-08-31,23,0.0040032025620496394 1856 | 2021-08-31,24,0.0 1857 | 2021-08-31,25,0.0 1858 | 2021-08-31,26,0.003188702881220818 1859 | 2021-08-31,27,0.0022963663379710927 1860 | 2021-08-31,28,0.006754256106587713 1861 | 2021-08-31,29,0.0036363636363636364 1862 | 2021-09-01,0,0.006588205990410362 1863 | 2021-09-01,1,0.005546384945526577 1864 | 2021-09-01,2,0.007069842842347008 1865 | 2021-09-01,3,0.008118201006656925 1866 | 2021-09-01,4,0.005824654093497607 1867 | 2021-09-01,5,0.0027118405296893714 1868 | 2021-09-01,6,0.004702679289647918 1869 | 2021-09-01,7,0.0 1870 | 2021-09-01,8,0.006763317373690026 1871 | 2021-09-01,9,0.0033832078528542838 1872 | 2021-09-01,10,0.024825493171471927 1873 | 2021-09-01,11,0.005853727343254108 1874 | 2021-09-01,12,0.002979253561562212 1875 | 2021-09-01,13,0.007812194836139212 1876 | 2021-09-01,14,0.010148132440701584 1877 | 2021-09-01,15,0.0 1878 | 2021-09-01,16,-0.04279817510319357 1879 | 2021-09-01,17,0.01296296296296296 1880 | 2021-09-01,18,0.002114590675662068 1881 | 2021-09-01,19,0.003088538091969801 1882 | 2021-09-01,20,0.00394880174291939 1883 | 2021-09-01,21,0.00730683243361143 1884 | 2021-09-01,22,0.0 1885 | 2021-09-01,23,0.004253635374418835 1886 | 2021-09-01,24,0.0 1887 | 2021-09-01,25,0.0 1888 | 2021-09-01,26,0.003403289846851957 1889 | 2021-09-01,27,0.0021540800810947794 1890 | 2021-09-01,28,0.007197363857093306 1891 | 2021-09-01,29,0.0036281179138321993 1892 | 2021-09-02,0,0.006953341708855249 1893 | 2021-09-02,1,0.005877643886407686 1894 | 2021-09-02,2,0.00789112027308596 1895 | 2021-09-02,3,0.00867819441746001 1896 | 2021-09-02,4,0.005952634947727757 1897 | 2021-09-02,5,0.0034098498962983797 1898 | 2021-09-02,6,0.0051985469121884 1899 | 2021-09-02,7,0.0 1900 | 2021-09-02,8,0.007225288509784245 1901 | 2021-09-02,9,0.003751113611853519 1902 | 2021-09-02,10,0.024252471296125743 1903 | 2021-09-02,11,0.005225163286352698 1904 | 2021-09-02,12,0.0036762747082955934 1905 | 2021-09-02,13,0.0080577727099962 1906 | 2021-09-02,14,0.011105009457562999 1907 | 2021-09-02,15,0.0 1908 | 2021-09-02,16,-0.04247230067347382 1909 | 2021-09-02,17,0.01296296296296296 1910 | 2021-09-02,18,0.0020236770211474247 1911 | 2021-09-02,19,0.0030523995251822964 1912 | 2021-09-02,20,0.00523226135783563 1913 | 2021-09-02,21,0.007321835340058575 1914 | 2021-09-02,22,0.0 1915 | 2021-09-02,23,0.004242599556455501 1916 | 2021-09-02,24,0.0 1917 | 2021-09-02,25,0.0 1918 | 2021-09-02,26,0.0035858359480053785 1919 | 2021-09-02,27,0.001948605529168189 1920 | 2021-09-02,28,0.007420675537359263 1921 | 2021-09-02,29,0.004107088530574993 1922 | 2021-09-03,0,0.007141599818945356 1923 | 2021-09-03,1,0.0057671162174898465 1924 | 2021-09-03,2,0.008039766587421657 1925 | 2021-09-03,3,0.009615712483377092 1926 | 2021-09-03,4,0.006734986592387802 1927 | 2021-09-03,5,0.003345910158752759 1928 | 2021-09-03,6,0.006024860476915271 1929 | 2021-09-03,7,0.0 1930 | 2021-09-03,8,0.007792653621695847 1931 | 2021-09-03,9,0.003994736347401071 1932 | 2021-09-03,10,0.023776138511247942 1933 | 2021-09-03,11,0.0052576962988585265 1934 | 2021-09-03,12,0.003930942895086322 1935 | 2021-09-03,13,0.008056171470805618 1936 | 2021-09-03,14,0.012045919169680766 1937 | 2021-09-03,15,0.0 1938 | 2021-09-03,16,0.003105257522218653 1939 | 2021-09-03,17,0.012814714307251621 1940 | 2021-09-03,18,0.0020181634712411706 1941 | 2021-09-03,19,0.0032258064516129032 1942 | 2021-09-03,20,0.00575690174015439 1943 | 2021-09-03,21,0.007844800169617302 1944 | 2021-09-03,22,0.0 1945 | 2021-09-03,23,0.004293848595164753 1946 | 2021-09-03,24,0.0 1947 | 2021-09-03,25,0.0 1948 | 2021-09-03,26,0.0033237314424994463 1949 | 2021-09-03,27,0.0022355571243675727 1950 | 2021-09-03,28,0.008262372481241044 1951 | 2021-09-03,29,0.00428921568627451 1952 | 2021-09-04,0,0.007455683673338218 1953 | 2021-09-04,1,0.005671974749032917 1954 | 2021-09-04,2,0.008074589578872235 1955 | 2021-09-04,3,0.009261768503610655 1956 | 2021-09-04,4,0.0069279288594767865 1957 | 2021-09-04,5,0.003295418305517168 1958 | 2021-09-04,6,0.006422439216200276 1959 | 2021-09-04,7,0.0 1960 | 2021-09-04,8,0.007879976600942844 1961 | 2021-09-04,9,0.003744792398071432 1962 | 2021-09-04,10,0.023651479023007026 1963 | 2021-09-04,11,0.005589468265058469 1964 | 2021-09-04,12,0.004555686568764069 1965 | 2021-09-04,13,0.008192036578395885 1966 | 2021-09-04,14,0.013177255337932839 1967 | 2021-09-04,15,0.0 1968 | 2021-09-04,16,0.0034177079995727864 1969 | 2021-09-04,17,0.012814714307251621 1970 | 2021-09-04,18,0.0017171717171717172 1971 | 2021-09-04,19,0.00319318786588611 1972 | 2021-09-04,20,0.005686125852918878 1973 | 2021-09-04,21,0.007684265551489806 1974 | 2021-09-04,22,0.0 1975 | 2021-09-04,23,0.004066543438077635 1976 | 2021-09-04,24,0.0 1977 | 2021-09-04,25,0.0 1978 | 2021-09-04,26,0.003454423891241364 1979 | 2021-09-04,27,0.002188940092165899 1980 | 2021-09-04,28,0.009033648267860102 1981 | 2021-09-04,29,0.00419219606578523 1982 | 2021-09-05,0,0.007610949269086423 1983 | 2021-09-05,1,0.005856917339678327 1984 | 2021-09-05,2,0.007983290786725458 1985 | 2021-09-05,3,0.009491356382978723 1986 | 2021-09-05,4,0.006621699432425763 1987 | 2021-09-05,5,0.0033034953111679456 1988 | 2021-09-05,6,0.008158672105781405 1989 | 2021-09-05,7,0.0 1990 | 2021-09-05,8,0.00812776272636532 1991 | 2021-09-05,9,0.0034789149546330684 1992 | 2021-09-05,10,0.022461937598142964 1993 | 2021-09-05,11,0.005532611236655498 1994 | 2021-09-05,12,0.005171856480982652 1995 | 2021-09-05,13,0.008343548578433313 1996 | 2021-09-05,14,0.014300128735952123 1997 | 2021-09-05,15,0.0 1998 | 2021-09-05,16,0.003947508801877734 1999 | 2021-09-05,17,0.01337958374628345 2000 | 2021-09-05,18,0.0018412438625204583 2001 | 2021-09-05,19,0.0031516499814608825 2002 | 2021-09-05,20,0.0052726337448559665 2003 | 2021-09-05,21,0.007475083056478406 2004 | 2021-09-05,22,0.0 2005 | 2021-09-05,23,0.004110715264456015 2006 | 2021-09-05,24,0.0 2007 | 2021-09-05,25,0.0 2008 | 2021-09-05,26,0.0036908623196510453 2009 | 2021-09-05,27,0.0019355573266537627 2010 | 2021-09-05,28,0.009147393855712806 2011 | 2021-09-05,29,0.0042115902964959566 2012 | 2021-09-06,0,0.007790406787035023 2013 | 2021-09-06,1,0.006152256610153573 2014 | 2021-09-06,2,0.007983290786725458 2015 | 2021-09-06,3,0.00948178587668626 2016 | 2021-09-06,4,0.006472086517182345 2017 | 2021-09-06,5,0.0034274342153755443 2018 | 2021-09-06,6,0.00808833872555915 2019 | 2021-09-06,7,0.0 2020 | 2021-09-06,8,0.008107012565869477 2021 | 2021-09-06,9,0.0035554701388555232 2022 | 2021-09-06,10,0.022461937598142964 2023 | 2021-09-06,11,0.005532611236655498 2024 | 2021-09-06,12,0.00498876158105367 2025 | 2021-09-06,13,0.008343548578433313 2026 | 2021-09-06,14,0.014160954733655752 2027 | 2021-09-06,15,0.0 2028 | 2021-09-06,16,0.004072883172561629 2029 | 2021-09-06,17,0.01337958374628345 2030 | 2021-09-06,18,0.0018854090290143502 2031 | 2021-09-06,19,0.0031516499814608825 2032 | 2021-09-06,20,0.00516698172652804 2033 | 2021-09-06,21,0.007516049898220158 2034 | 2021-09-06,22,0.0 2035 | 2021-09-06,23,0.0045846323124885385 2036 | 2021-09-06,24,0.0 2037 | 2021-09-06,25,0.0 2038 | 2021-09-06,26,0.003843979649519502 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5.4,3.7,1.5,0.2,Iris-setosa 13 | 4.8,3.4,1.6,0.2,Iris-setosa 14 | 4.8,3.0,1.4,0.1,Iris-setosa 15 | 4.3,3.0,1.1,0.1,Iris-setosa 16 | 5.8,4.0,1.2,0.2,Iris-setosa 17 | 5.7,4.4,1.5,0.4,Iris-setosa 18 | 5.4,3.9,1.3,0.4,Iris-setosa 19 | 5.1,3.5,1.4,0.3,Iris-setosa 20 | 5.7,3.8,1.7,0.3,Iris-setosa 21 | 5.1,3.8,1.5,0.3,Iris-setosa 22 | 5.4,3.4,1.7,0.2,Iris-setosa 23 | 5.1,3.7,1.5,0.4,Iris-setosa 24 | 4.6,3.6,1.0,0.2,Iris-setosa 25 | 5.1,3.3,1.7,0.5,Iris-setosa 26 | 4.8,3.4,1.9,0.2,Iris-setosa 27 | 5.0,3.0,1.6,0.2,Iris-setosa 28 | 5.0,3.4,1.6,0.4,Iris-setosa 29 | 5.2,3.5,1.5,0.2,Iris-setosa 30 | 5.2,3.4,1.4,0.2,Iris-setosa 31 | 4.7,3.2,1.6,0.2,Iris-setosa 32 | 4.8,3.1,1.6,0.2,Iris-setosa 33 | 5.4,3.4,1.5,0.4,Iris-setosa 34 | 5.2,4.1,1.5,0.1,Iris-setosa 35 | 5.5,4.2,1.4,0.2,Iris-setosa 36 | 4.9,3.1,1.5,0.1,Iris-setosa 37 | 5.0,3.2,1.2,0.2,Iris-setosa 38 | 5.5,3.5,1.3,0.2,Iris-setosa 39 | 4.9,3.1,1.5,0.1,Iris-setosa 40 | 4.4,3.0,1.3,0.2,Iris-setosa 41 | 5.1,3.4,1.5,0.2,Iris-setosa 42 | 5.0,3.5,1.3,0.3,Iris-setosa 43 | 4.5,2.3,1.3,0.3,Iris-setosa 44 | 4.4,3.2,1.3,0.2,Iris-setosa 45 | 5.0,3.5,1.6,0.6,Iris-setosa 46 | 5.1,3.8,1.9,0.4,Iris-setosa 47 | 4.8,3.0,1.4,0.3,Iris-setosa 48 | 5.1,3.8,1.6,0.2,Iris-setosa 49 | 4.6,3.2,1.4,0.2,Iris-setosa 50 | 5.3,3.7,1.5,0.2,Iris-setosa 51 | 5.0,3.3,1.4,0.2,Iris-setosa 52 | 7.0,3.2,4.7,1.4,Iris-versicolor 53 | 6.4,3.2,4.5,1.5,Iris-versicolor 54 | 6.9,3.1,4.9,1.5,Iris-versicolor 55 | 5.5,2.3,4.0,1.3,Iris-versicolor 56 | 6.5,2.8,4.6,1.5,Iris-versicolor 57 | 5.7,2.8,4.5,1.3,Iris-versicolor 58 | 6.3,3.3,4.7,1.6,Iris-versicolor 59 | 4.9,2.4,3.3,1.0,Iris-versicolor 60 | 6.6,2.9,4.6,1.3,Iris-versicolor 61 | 5.2,2.7,3.9,1.4,Iris-versicolor 62 | 5.0,2.0,3.5,1.0,Iris-versicolor 63 | 5.9,3.0,4.2,1.5,Iris-versicolor 64 | 6.0,2.2,4.0,1.0,Iris-versicolor 65 | 6.1,2.9,4.7,1.4,Iris-versicolor 66 | 5.6,2.9,3.6,1.3,Iris-versicolor 67 | 6.7,3.1,4.4,1.4,Iris-versicolor 68 | 5.6,3.0,4.5,1.5,Iris-versicolor 69 | 5.8,2.7,4.1,1.0,Iris-versicolor 70 | 6.2,2.2,4.5,1.5,Iris-versicolor 71 | 5.6,2.5,3.9,1.1,Iris-versicolor 72 | 5.9,3.2,4.8,1.8,Iris-versicolor 73 | 6.1,2.8,4.0,1.3,Iris-versicolor 74 | 6.3,2.5,4.9,1.5,Iris-versicolor 75 | 6.1,2.8,4.7,1.2,Iris-versicolor 76 | 6.4,2.9,4.3,1.3,Iris-versicolor 77 | 6.6,3.0,4.4,1.4,Iris-versicolor 78 | 6.8,2.8,4.8,1.4,Iris-versicolor 79 | 6.7,3.0,5.0,1.7,Iris-versicolor 80 | 6.0,2.9,4.5,1.5,Iris-versicolor 81 | 5.7,2.6,3.5,1.0,Iris-versicolor 82 | 5.5,2.4,3.8,1.1,Iris-versicolor 83 | 5.5,2.4,3.7,1.0,Iris-versicolor 84 | 5.8,2.7,3.9,1.2,Iris-versicolor 85 | 6.0,2.7,5.1,1.6,Iris-versicolor 86 | 5.4,3.0,4.5,1.5,Iris-versicolor 87 | 6.0,3.4,4.5,1.6,Iris-versicolor 88 | 6.7,3.1,4.7,1.5,Iris-versicolor 89 | 6.3,2.3,4.4,1.3,Iris-versicolor 90 | 5.6,3.0,4.1,1.3,Iris-versicolor 91 | 5.5,2.5,4.0,1.3,Iris-versicolor 92 | 5.5,2.6,4.4,1.2,Iris-versicolor 93 | 6.1,3.0,4.6,1.4,Iris-versicolor 94 | 5.8,2.6,4.0,1.2,Iris-versicolor 95 | 5.0,2.3,3.3,1.0,Iris-versicolor 96 | 5.6,2.7,4.2,1.3,Iris-versicolor 97 | 5.7,3.0,4.2,1.2,Iris-versicolor 98 | 5.7,2.9,4.2,1.3,Iris-versicolor 99 | 6.2,2.9,4.3,1.3,Iris-versicolor 100 | 5.1,2.5,3.0,1.1,Iris-versicolor 101 | 5.7,2.8,4.1,1.3,Iris-versicolor 102 | 6.3,3.3,6.0,2.5,Iris-virginica 103 | 5.8,2.7,5.1,1.9,Iris-virginica 104 | 7.1,3.0,5.9,2.1,Iris-virginica 105 | 6.3,2.9,5.6,1.8,Iris-virginica 106 | 6.5,3.0,5.8,2.2,Iris-virginica 107 | 7.6,3.0,6.6,2.1,Iris-virginica 108 | 4.9,2.5,4.5,1.7,Iris-virginica 109 | 7.3,2.9,6.3,1.8,Iris-virginica 110 | 6.7,2.5,5.8,1.8,Iris-virginica 111 | 7.2,3.6,6.1,2.5,Iris-virginica 112 | 6.5,3.2,5.1,2.0,Iris-virginica 113 | 6.4,2.7,5.3,1.9,Iris-virginica 114 | 6.8,3.0,5.5,2.1,Iris-virginica 115 | 5.7,2.5,5.0,2.0,Iris-virginica 116 | 5.8,2.8,5.1,2.4,Iris-virginica 117 | 6.4,3.2,5.3,2.3,Iris-virginica 118 | 6.5,3.0,5.5,1.8,Iris-virginica 119 | 7.7,3.8,6.7,2.2,Iris-virginica 120 | 7.7,2.6,6.9,2.3,Iris-virginica 121 | 6.0,2.2,5.0,1.5,Iris-virginica 122 | 6.9,3.2,5.7,2.3,Iris-virginica 123 | 5.6,2.8,4.9,2.0,Iris-virginica 124 | 7.7,2.8,6.7,2.0,Iris-virginica 125 | 6.3,2.7,4.9,1.8,Iris-virginica 126 | 6.7,3.3,5.7,2.1,Iris-virginica 127 | 7.2,3.2,6.0,1.8,Iris-virginica 128 | 6.2,2.8,4.8,1.8,Iris-virginica 129 | 6.1,3.0,4.9,1.8,Iris-virginica 130 | 6.4,2.8,5.6,2.1,Iris-virginica 131 | 7.2,3.0,5.8,1.6,Iris-virginica 132 | 7.4,2.8,6.1,1.9,Iris-virginica 133 | 7.9,3.8,6.4,2.0,Iris-virginica 134 | 6.4,2.8,5.6,2.2,Iris-virginica 135 | 6.3,2.8,5.1,1.5,Iris-virginica 136 | 6.1,2.6,5.6,1.4,Iris-virginica 137 | 7.7,3.0,6.1,2.3,Iris-virginica 138 | 6.3,3.4,5.6,2.4,Iris-virginica 139 | 6.4,3.1,5.5,1.8,Iris-virginica 140 | 6.0,3.0,4.8,1.8,Iris-virginica 141 | 6.9,3.1,5.4,2.1,Iris-virginica 142 | 6.7,3.1,5.6,2.4,Iris-virginica 143 | 6.9,3.1,5.1,2.3,Iris-virginica 144 | 5.8,2.7,5.1,1.9,Iris-virginica 145 | 6.8,3.2,5.9,2.3,Iris-virginica 146 | 6.7,3.3,5.7,2.5,Iris-virginica 147 | 6.7,3.0,5.2,2.3,Iris-virginica 148 | 6.3,2.5,5.0,1.9,Iris-virginica 149 | 6.5,3.0,5.2,2.0,Iris-virginica 150 | 6.2,3.4,5.4,2.3,Iris-virginica 151 | 5.9,3.0,5.1,1.8,Iris-virginica -------------------------------------------------------------------------------- /joypy/__init__.py: -------------------------------------------------------------------------------- 1 | __author__ = 'Leonardo Taccari' 2 | __email__ = 'leonardo.taccari@gmail.com' 3 | __version__ = '0.2.6' 4 | 5 | from .joyplot import joyplot, plot_density, _joyplot 6 | -------------------------------------------------------------------------------- /joypy/joyplot.py: -------------------------------------------------------------------------------- 1 | import numpy as np 2 | from scipy.stats import gaussian_kde 3 | import scipy.stats as stats 4 | 5 | import warnings 6 | 7 | try: 8 | # pandas < 0.25 9 | from pandas.plotting._tools import (_subplots, _flatten) 10 | except ImportError: 11 | try: 12 | #pandas >= 0.25, <1.2.0 13 | from pandas.plotting._matplotlib.tools import (_subplots, _flatten) 14 | except ImportError: 15 | #pandas >= 1.2.0 16 | from pandas.plotting._matplotlib.tools import create_subplots as _subplots 17 | from pandas.plotting._matplotlib.tools import flatten_axes as _flatten 18 | 19 | from pandas import (DataFrame, Series) 20 | from pandas.core.dtypes.common import is_number 21 | from pandas.core.groupby import DataFrameGroupBy 22 | from matplotlib import pyplot as plt 23 | from warnings import warn 24 | 25 | _DEBUG = False 26 | 27 | def _x_range(data, extra=0.2): 28 | """ Compute the x_range, i.e., the values for which the 29 | density will be computed. It should be slightly larger than 30 | the max and min so that the plot actually reaches 0, and 31 | also has a bit of a tail on both sides. 32 | """ 33 | try: 34 | sample_range = np.nanmax(data) - np.nanmin(data) 35 | except ValueError: 36 | return [] 37 | if sample_range < 1e-6: 38 | return [np.nanmin(data), np.nanmax(data)] 39 | return np.linspace(np.nanmin(data) - extra*sample_range, 40 | np.nanmax(data) + extra*sample_range, 1000) 41 | 42 | def _setup_axis(ax, x_range, col_name=None, grid=False, ylabelsize=None, yrot=None): 43 | """ Setup the axis for the joyplot: 44 | - add the y label if required (as an ytick) 45 | - add y grid if required 46 | - make the background transparent 47 | - set the xlim according to the x_range 48 | - hide the xaxis and the spines 49 | """ 50 | if col_name is not None: 51 | ax.set_yticks([0]) 52 | ax.set_yticklabels([col_name], fontsize=ylabelsize, rotation=yrot) 53 | ax.yaxis.grid(grid) 54 | else: 55 | ax.yaxis.set_visible(False) 56 | ax.patch.set_alpha(0) 57 | ax.set_xlim([min(x_range), max(x_range)]) 58 | ax.tick_params(axis='both', which='both', length=0, pad=10) 59 | ax.xaxis.set_visible(_DEBUG) 60 | ax.set_frame_on(_DEBUG) 61 | 62 | def _is_numeric(x): 63 | """ Whether the array x is numeric. """ 64 | return all(is_number(i) for i in x) 65 | 66 | def _get_alpha(i, n, start=0.4, end=1.0): 67 | """ Compute alpha value at position i out of n """ 68 | return start + (1 + i)*(end - start)/n 69 | 70 | def _remove_na(l): 71 | """ Remove NA values. Should work for lists, arrays, series. """ 72 | return Series(l).dropna().values 73 | 74 | def _moving_average(a, n=3, zero_padded=False): 75 | """ Moving average of order n. 76 | If zero padded, returns an array of the same size as 77 | the input: the values before a[0] are considered to be 0. 78 | Otherwise, returns an array of length len(a) - n + 1 """ 79 | ret = np.cumsum(a, dtype=float) 80 | ret[n:] = ret[n:] - ret[:-n] 81 | if zero_padded: 82 | return ret / n 83 | else: 84 | return ret[n - 1:] / n 85 | 86 | def joyplot(data, column=None, by=None, grid=False, 87 | xlabelsize=None, xrot=None, ylabelsize=None, yrot=None, 88 | ax=None, figsize=None, 89 | hist=False, bins=10, 90 | fade=False, ylim='max', 91 | fill=True, linecolor=None, 92 | overlap=1, background=None, 93 | labels=None, xlabels=True, ylabels=True, 94 | range_style='all', 95 | x_range=None, 96 | title=None, 97 | colormap=None, 98 | color=None, 99 | normalize=True, 100 | floc=None, 101 | **kwds): 102 | """ 103 | Draw joyplot of a DataFrame, or appropriately nested collection, 104 | using matplotlib and pandas. 105 | 106 | A joyplot is a stack of vertically aligned density plots / histograms. 107 | By default, if 'data' is a DataFrame, 108 | this function will plot a density plot for each column. 109 | 110 | This wrapper method tries to convert whatever structure is given 111 | to a nested collection of lists with additional information 112 | on labels, and use the private _joyplot function to actually 113 | draw theh plot. 114 | 115 | Parameters 116 | ---------- 117 | data : DataFrame, Series or nested collection 118 | column : string or sequence 119 | If passed, will be used to limit data to a subset of columns 120 | by : object, optional 121 | If passed, used to form separate plot groups 122 | grid : boolean, default True 123 | Whether to show axis grid lines 124 | labels : boolean or list, default True. 125 | If list, must be the same size of the de 126 | xlabelsize : int, default None 127 | If specified changes the x-axis label size 128 | xrot : float, default None 129 | rotation of x axis labels 130 | ylabelsize : int, default None 131 | If specified changes the y-axis label size 132 | yrot : float, default None 133 | rotation of y axis labels 134 | ax : matplotlib axes object, default None 135 | figsize : tuple 136 | The size of the figure to create in inches by default 137 | hist : boolean, default False 138 | bins : integer, default 10 139 | Number of histogram bins to be used 140 | color : color or colors to be used in the plots. It can be: 141 | a string or anything interpretable as color by matplotib; 142 | a list of colors. See docs / examples for more details. 143 | kwds : other plotting keyword arguments 144 | To be passed to hist/kde plot function 145 | """ 146 | 147 | if column is not None: 148 | if not isinstance(column, (list, np.ndarray)): 149 | column = [column] 150 | 151 | def _grouped_df_to_standard(grouped, column): 152 | converted = [] 153 | labels = [] 154 | for i, (key, group) in enumerate(grouped): 155 | if column is not None: 156 | group = group[column] 157 | labels.append(key) 158 | converted.append([_remove_na(group[c]) for c in group.columns if _is_numeric(group[c])]) 159 | if i == 0: 160 | sublabels = [col for col in group.columns if _is_numeric(group[col])] 161 | return converted, labels, sublabels 162 | 163 | ################################################################# 164 | # GROUPED 165 | # - given a grouped DataFrame, a group by key, or a dict of dicts of Series/lists/arrays 166 | # - select the required columns/Series/lists/arrays 167 | # - convert to standard format: list of lists of non-null arrays 168 | # + extra parameters (labels and sublabels) 169 | ################################################################# 170 | if isinstance(data, DataFrameGroupBy): 171 | grouped = data 172 | converted, _labels, sublabels = _grouped_df_to_standard(grouped, column) 173 | if labels is None: 174 | labels = _labels 175 | elif by is not None and isinstance(data, DataFrame): 176 | grouped = data.groupby(by) 177 | if column is None: 178 | # Remove the groupby key. It's not automatically removed by pandas. 179 | column = list(data.columns) 180 | column.remove(by) 181 | converted, _labels, sublabels = _grouped_df_to_standard(grouped, column) 182 | if labels is None: 183 | labels = _labels 184 | # If there is at least an element which is not a list of lists.. go on. 185 | elif isinstance(data, dict) and all(isinstance(g, dict) for g in data.values()): 186 | grouped = data 187 | if labels is None: 188 | labels = list(grouped.keys()) 189 | converted = [] 190 | for i, (key, group) in enumerate(grouped.items()): 191 | if column is not None: 192 | converted.append([_remove_na(g) for k,g in group.items() if _is_numeric(g) and k in column]) 193 | if i == 0: 194 | sublabels = [k for k,g in group.items() if _is_numeric(g)] 195 | else: 196 | converted.append([_remove_na(g) for k,g in group.items() if _is_numeric(g)]) 197 | if i == 0: 198 | sublabels = [k for k,g in group.items() if _is_numeric(g)] 199 | ################################################################# 200 | # PLAIN: 201 | # - given a DataFrame or list/dict of Series/lists/arrays 202 | # - select the required columns/Series/lists/arrays 203 | # - convert to standard format: list of lists of non-null arrays + extra parameter (labels) 204 | ################################################################# 205 | elif isinstance(data, DataFrame): 206 | if column is not None: 207 | data = data[column] 208 | converted = [[_remove_na(data[col])] for col in data.columns if _is_numeric(data[col])] 209 | labels = [col for col in data.columns if _is_numeric(data[col])] 210 | sublabels = None 211 | elif isinstance(data, dict): 212 | if column is not None: 213 | converted = [[_remove_na(g)] for k,g in data.items() if _is_numeric(g) and k in column] 214 | labels = [k for k,g in data.items() if _is_numeric(g) and k in column] 215 | else: 216 | converted = [[_remove_na(g)] for k,g in data.items() if _is_numeric(g)] 217 | labels = [k for k,g in data.items() if _is_numeric(g)] 218 | sublabels = None 219 | elif isinstance(data, list): 220 | if column is not None: 221 | converted = [[_remove_na(g)] for g in data if _is_numeric(g) and i in column] 222 | else: 223 | converted = [[_remove_na(g)] for g in data if _is_numeric(g)] 224 | if labels and len(labels) != len(converted): 225 | raise ValueError("The number of labels does not match the length of the list.") 226 | 227 | sublabels = None 228 | else: 229 | raise TypeError("Unknown type for 'data': {!r}".format(type(data))) 230 | 231 | if ylabels is False: 232 | labels = None 233 | 234 | if all(len(subg)==0 for g in converted for subg in g): 235 | raise ValueError("No numeric values found. Joyplot requires at least a numeric column/group.") 236 | 237 | if any(len(subg)==0 for g in converted for subg in g): 238 | warn("At least a column/group has no numeric values.") 239 | 240 | 241 | return _joyplot(converted, labels=labels, sublabels=sublabels, 242 | grid=grid, 243 | xlabelsize=xlabelsize, xrot=xrot, ylabelsize=ylabelsize, yrot=yrot, 244 | ax=ax, figsize=figsize, 245 | hist=hist, bins=bins, 246 | fade=fade, ylim=ylim, 247 | fill=fill, linecolor=linecolor, 248 | overlap=overlap, background=background, 249 | xlabels=xlabels, 250 | range_style=range_style, x_range=x_range, 251 | title=title, 252 | colormap=colormap, 253 | color=color, 254 | normalize=normalize, 255 | floc=floc, 256 | **kwds) 257 | 258 | ########################################### 259 | 260 | def plot_density(ax, x_range, v, kind="kde", bw_method=None, 261 | bins=50, 262 | fill=False, linecolor=None, clip_on=True, 263 | normalize=True, floc=None,**kwargs): 264 | """ Draw a density plot given an axis, an array of values v and an array 265 | of x positions where to return the estimated density. 266 | """ 267 | v = _remove_na(v) 268 | if len(v) == 0 or len(x_range) == 0: 269 | return 270 | 271 | if kind == "kde": 272 | try: 273 | gkde = gaussian_kde(v, bw_method=bw_method) 274 | y = gkde.evaluate(x_range) 275 | except ValueError: 276 | # Handle cases where there is no data in a group. 277 | y = np.zeros_like(x_range) 278 | except np.linalg.LinAlgError as e: 279 | # Handle singular matrix in kde computation. 280 | distinct_values = np.unique(v) 281 | if len(distinct_values) == 1: 282 | # In case of a group with a single value val, 283 | # that should have infinite density, 284 | # return a δ(val) 285 | val = distinct_values[0] 286 | warnings.warn("The data contains a group with a single distinct value ({}) " 287 | "having infinite probability density. " 288 | "Consider using a different visualization.".format(val)) 289 | 290 | # Find index i of x_range 291 | # such that x_range[i-1] < val ≤ x_range[i] 292 | i = np.searchsorted(x_range, val) 293 | 294 | y = np.zeros_like(x_range) 295 | y[i] = 1 296 | else: 297 | raise e 298 | 299 | elif kind == "lognorm": 300 | if floc is not None: 301 | lnparam = stats.lognorm.fit(v,loc=floc) 302 | else: 303 | lnparam = stats.lognorm.fit(v) 304 | 305 | lpdf = stats.lognorm.pdf(x_range,lnparam[0],lnparam[1],lnparam[2]) 306 | if normalize: 307 | y = lpdf/lpdf.sum() 308 | else: 309 | y = lpdf 310 | elif kind == "counts": 311 | y, bin_edges = np.histogram(v, bins=bins, range=(min(x_range), max(x_range))) 312 | # np.histogram returns the edges of the bins. 313 | # We compute here the middle of the bins. 314 | x_range = _moving_average(bin_edges, 2) 315 | elif kind == "normalized_counts": 316 | y, bin_edges = np.histogram(v, bins=bins, density=False, 317 | range=(min(x_range), max(x_range))) 318 | # np.histogram returns the edges of the bins. 319 | # We compute here the middle of the bins. 320 | y = y / len(v) 321 | x_range = _moving_average(bin_edges, 2) 322 | elif kind == "values": 323 | # Warning: to use values and get a meaningful visualization, 324 | # x_range must also be manually set in the main function. 325 | y = v 326 | x_range = list(range(len(y))) 327 | else: 328 | raise NotImplementedError 329 | 330 | if fill: 331 | 332 | ax.fill_between(x_range, 0.0, y, clip_on=clip_on, **kwargs) 333 | 334 | # Hack to have a border at the bottom at the fill patch 335 | # (of the same color of the fill patch) 336 | # so that the fill reaches the same bottom margin as the edge lines 337 | # with y value = 0.0 338 | kw = kwargs 339 | kw["label"] = None 340 | ax.plot(x_range, [0.0]*len(x_range), clip_on=clip_on, **kw) 341 | 342 | if linecolor is not None: 343 | kwargs["color"] = linecolor 344 | 345 | # Remove the legend labels if we are plotting filled curve: 346 | # we only want one entry per group in the legend (if shown). 347 | if fill: 348 | kwargs["label"] = None 349 | 350 | ax.plot(x_range, y, clip_on=clip_on, **kwargs) 351 | 352 | 353 | ########################################### 354 | 355 | def _joyplot(data, 356 | grid=False, 357 | labels=None, sublabels=None, 358 | xlabels=True, 359 | xlabelsize=None, xrot=None, 360 | ylabelsize=None, yrot=None, 361 | ax=None, figsize=None, 362 | hist=False, bins=10, 363 | fade=False, 364 | xlim=None, ylim='max', 365 | fill=True, linecolor=None, 366 | overlap=1, background=None, 367 | range_style='all', x_range=None, tails=0.2, 368 | title=None, 369 | legend=False, loc="upper right", 370 | colormap=None, color=None, 371 | normalize=True, 372 | floc=None, 373 | **kwargs): 374 | """ 375 | Internal method. 376 | Draw a joyplot from an appropriately nested collection of lists 377 | using matplotlib and pandas. 378 | 379 | Parameters 380 | ---------- 381 | data : DataFrame, Series or nested collection 382 | grid : boolean, default True 383 | Whether to show axis grid lines 384 | labels : boolean or list, default True. 385 | If list, must be the same size of the de 386 | xlabelsize : int, default None 387 | If specified changes the x-axis label size 388 | xrot : float, default None 389 | rotation of x axis labels 390 | ylabelsize : int, default None 391 | If specified changes the y-axis label size 392 | yrot : float, default None 393 | rotation of y axis labels 394 | ax : matplotlib axes object, default None 395 | figsize : tuple 396 | The size of the figure to create in inches by default 397 | hist : boolean, default False 398 | bins : integer, default 10 399 | Number of histogram bins to be used 400 | kwarg : other plotting keyword arguments 401 | To be passed to hist/kde plot function 402 | """ 403 | 404 | if fill is True and linecolor is None: 405 | linecolor = "k" 406 | 407 | if sublabels is None: 408 | legend = False 409 | 410 | def _get_color(i, num_axes, j, num_subgroups): 411 | if isinstance(color, list): 412 | return color[j] if num_subgroups > 1 else color[i] 413 | elif color is not None: 414 | return color 415 | elif isinstance(colormap, list): 416 | return colormap[j](i/num_axes) 417 | elif color is None and colormap is None: 418 | num_cycle_colors = len(plt.rcParams['axes.prop_cycle'].by_key()['color']) 419 | return plt.rcParams['axes.prop_cycle'].by_key()['color'][j % num_cycle_colors] 420 | else: 421 | return colormap(i/num_axes) 422 | 423 | ygrid = (grid is True or grid == 'y' or grid == 'both') 424 | xgrid = (grid is True or grid == 'x' or grid == 'both') 425 | 426 | num_axes = len(data) 427 | 428 | if x_range is None: 429 | global_x_range = _x_range([v for g in data for sg in g for v in sg]) 430 | else: 431 | global_x_range = _x_range(x_range, 0.0) 432 | global_x_min, global_x_max = min(global_x_range), max(global_x_range) 433 | 434 | # Each plot will have its own axis 435 | fig, axes = _subplots(naxes=num_axes, ax=ax, squeeze=False, 436 | sharex=True, sharey=False, figsize=figsize, 437 | layout_type='vertical') 438 | _axes = _flatten(axes) 439 | 440 | # The legend must be drawn in the last axis if we want it at the bottom. 441 | if loc in (3, 4, 8) or 'lower' in str(loc): 442 | legend_axis = num_axes - 1 443 | else: 444 | legend_axis = 0 445 | 446 | # A couple of simple checks. 447 | if labels is not None: 448 | assert len(labels) == num_axes 449 | if sublabels is not None: 450 | assert all(len(g) == len(sublabels) for g in data) 451 | if isinstance(color, list): 452 | assert all(len(g) <= len(color) for g in data) 453 | if isinstance(colormap, list): 454 | assert all(len(g) == len(colormap) for g in data) 455 | 456 | for i, group in enumerate(data): 457 | 458 | a = _axes[i] 459 | group_zorder = i 460 | if fade: 461 | kwargs['alpha'] = _get_alpha(i, num_axes) 462 | 463 | num_subgroups = len(group) 464 | 465 | if hist: 466 | # matplotlib hist() already handles multiple subgroups in a histogram 467 | a.hist(group, label=sublabels, bins=bins, color=color, 468 | range=[min(global_x_range), max(global_x_range)], 469 | edgecolor=linecolor, zorder=group_zorder, **kwargs) 470 | else: 471 | for j, subgroup in enumerate(group): 472 | 473 | # Compute the x_range of the current plot 474 | if range_style == 'all': 475 | # All plots have the same range 476 | x_range = global_x_range 477 | elif range_style == 'own': 478 | # Each plot has its own range 479 | x_range = _x_range(subgroup, tails) 480 | elif range_style == 'group': 481 | # Each plot has a range that covers the whole group 482 | x_range = _x_range(group, tails) 483 | elif isinstance(range_style, (list, np.ndarray)): 484 | # All plots have exactly the range passed as argument 485 | x_range = _x_range(range_style, 0.0) 486 | else: 487 | raise NotImplementedError("Unrecognized range style.") 488 | 489 | if sublabels is None: 490 | sublabel = None 491 | else: 492 | sublabel = sublabels[j] 493 | 494 | element_zorder = group_zorder + j/(num_subgroups+1) 495 | element_color = _get_color(i, num_axes, j, num_subgroups) 496 | 497 | plot_density(a, x_range, subgroup, 498 | fill=fill, linecolor=linecolor, label=sublabel, 499 | zorder=element_zorder, color=element_color, 500 | bins=bins, **kwargs) 501 | 502 | # Setup the current axis: transparency, labels, spines. 503 | col_name = None if labels is None else labels[i] 504 | _setup_axis(a, global_x_range, col_name=col_name, grid=ygrid, 505 | ylabelsize=ylabelsize, yrot=yrot) 506 | 507 | # When needed, draw the legend 508 | if legend and i == legend_axis: 509 | a.legend(loc=loc) 510 | # Bypass alpha values, in case 511 | for p in a.get_legend().get_patches(): 512 | p.set_facecolor(p.get_facecolor()) 513 | p.set_alpha(1.0) 514 | for l in a.get_legend().get_lines(): 515 | l.set_alpha(1.0) 516 | 517 | 518 | # Final adjustments 519 | 520 | # Set the y limit for the density plots. 521 | # Since the y range in the subplots can vary significantly, 522 | # different options are available. 523 | if ylim == 'max': 524 | # Set all yaxis limit to the same value (max range among all) 525 | max_ylim = max(a.get_ylim()[1] for a in _axes) 526 | min_ylim = min(a.get_ylim()[0] for a in _axes) 527 | for a in _axes: 528 | a.set_ylim([min_ylim - 0.1*(max_ylim-min_ylim), max_ylim]) 529 | 530 | elif ylim == 'own': 531 | # Do nothing, each axis keeps its own ylim 532 | pass 533 | 534 | else: 535 | # Set all yaxis lim to the argument value ylim 536 | try: 537 | for a in _axes: 538 | a.set_ylim(ylim) 539 | except: 540 | print("Warning: the value of ylim must be either 'max', 'own', or a tuple of length 2. The value you provided has no effect.") 541 | 542 | # Compute a final axis, used to apply global settings 543 | last_axis = fig.add_subplot(1, 1, 1) 544 | 545 | # Background color 546 | if background is not None: 547 | last_axis.patch.set_facecolor(background) 548 | 549 | for side in ['top', 'bottom', 'left', 'right']: 550 | last_axis.spines[side].set_visible(_DEBUG) 551 | 552 | # This looks hacky, but all the axes share the x-axis, 553 | # so they have the same lims and ticks 554 | last_axis.set_xlim(_axes[0].get_xlim()) 555 | if xlabels is True: 556 | last_axis.set_xticks(np.array(_axes[0].get_xticks()[1:-1])) 557 | for t in last_axis.get_xticklabels(): 558 | t.set_visible(True) 559 | t.set_fontsize(xlabelsize) 560 | t.set_rotation(xrot) 561 | 562 | # If grid is enabled, do not allow xticks (they are ugly) 563 | if xgrid: 564 | last_axis.tick_params(axis='both', which='both',length=0) 565 | else: 566 | last_axis.xaxis.set_visible(False) 567 | 568 | last_axis.yaxis.set_visible(False) 569 | last_axis.grid(xgrid) 570 | 571 | 572 | # Last axis on the back 573 | last_axis.zorder = min(a.zorder for a in _axes) - 1 574 | _axes = list(_axes) + [last_axis] 575 | 576 | if title is not None: 577 | plt.title(title) 578 | 579 | 580 | # The magic overlap happens here. 581 | h_pad = 5 + (- 5*(1 + overlap)) 582 | fig.tight_layout(h_pad=h_pad) 583 | 584 | return fig, _axes 585 | 586 | -------------------------------------------------------------------------------- /setup.py: -------------------------------------------------------------------------------- 1 | from setuptools import setup 2 | 3 | setup(name='joypy', 4 | version='0.2.6', 5 | description='Joyplots in python', 6 | long_description='Joyplots in python.', 7 | classifiers=[ 8 | 'Development Status :: 3 - Alpha', 9 | 'License :: OSI Approved :: MIT License', 10 | 'Programming Language :: Python :: 3.5', 11 | 'Programming Language :: Python :: 3.6', 12 | 'Programming Language :: Python :: 3.7', 13 | 'Programming Language :: Python :: 3.8', 14 | 'Programming Language :: Python :: 3.9', 15 | 'Topic :: Scientific/Engineering :: Visualization', 16 | ], 17 | url='http://github.com/leotac/joypy', 18 | author='Leonardo Taccari', 19 | author_email='leonardo.taccari@gmail.com', 20 | license='MIT', 21 | packages=['joypy'], 22 | python_requires='>=3.5', 23 | install_requires=[ 24 | 'numpy>=1.16.5', 25 | 'scipy>=0.11.0', 26 | 'pandas>=0.20.0', 27 | 'matplotlib', 28 | ], 29 | zip_safe=False) 30 | -------------------------------------------------------------------------------- /temperatures.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/leotac/joypy/fb74cb6c725199cca4f5260fdbc0a90ff579c7f3/temperatures.png -------------------------------------------------------------------------------- /tests/test_joyplot.py: -------------------------------------------------------------------------------- 1 | # coding: utf-8 2 | from __future__ import unicode_literals 3 | import joypy 4 | import pandas as pd 5 | import numpy as np 6 | from matplotlib import cm 7 | 8 | import pytest 9 | 10 | print('joypy version',joypy.__version__) 11 | 12 | @pytest.fixture 13 | def iris(): 14 | return pd.read_csv("data/iris.csv") 15 | 16 | @pytest.fixture 17 | def temp(): 18 | return pd.read_csv("data/daily_temp.csv", comment="%") 19 | 20 | @pytest.fixture 21 | def CFR(): 22 | return pd.read_csv("data/CFR.csv",comment='#') 23 | 24 | def test_basic(iris): 25 | fig, axes = joypy.joyplot(iris) 26 | 27 | def test_groupby(iris): 28 | fig, axes = joypy.joyplot(iris, by="Name") 29 | fig, axes = joypy.joyplot(iris, by="Name", ylim='own') 30 | fig, axes = joypy.joyplot(iris, by="Name", overlap=3) 31 | 32 | def test_groupby_hist(iris): 33 | fig, axes = joypy.joyplot(iris, by="Name", column="SepalWidth", 34 | hist="True", bins=20, overlap=0, 35 | grid=True, legend=False) 36 | def test_temperature(temp): 37 | labels=[y if y%10==0 else None for y in list(temp.Year.unique())] 38 | fig, axes = joypy.joyplot(temp, by="Year", column="Anomaly", labels=labels, range_style='own', 39 | grid="y", linewidth=1, legend=False, figsize=(6,5), 40 | title="Global daily temperature 1880-2014 \n(°C above 1950-80 average)", 41 | colormap=cm.autumn_r) 42 | 43 | def test_raw_counts(temp): 44 | labels=[y if y%10==0 else None for y in list(temp.Year.unique())] 45 | fig, axes = joypy.joyplot(temp, by="Year", column="Anomaly", labels=labels, range_style='own', 46 | grid="y", linewidth=1, legend=False, fade=True, figsize=(6,5), 47 | title="Global daily temperature 1880-2014 \n(°C above 1950-80 average)", 48 | kind="counts", bins=30) 49 | 50 | def test_raw_data(): 51 | x = np.arange(0, 100, 0.1) 52 | y =[n*x for n in range(1,4)] 53 | fig, ax = joypy.joyplot(y, labels=["a","b","c"]) 54 | 55 | def test_lognorm(CFR): 56 | zmask = CFR['ratio'] > 0 57 | labels = CFR['date'].unique() 58 | for i in range(1,len(labels)): 59 | if labels[i].split('-')[2] != '01': 60 | labels[i] = None 61 | fig,axes = joypy.joyplot(CFR[zmask], by='date', column='ratio', labels = labels, 62 | kind = 'lognorm', range_style='own', tails = 0.1, 63 | overlap = 4, x_range=[0.0,0.061], grid="y", 64 | linewidth=0.25, figsize=(6.5,9.0), 65 | title='Case Fatality Ratio', 66 | colormap=cm.Blues_r, 67 | ylim = 'own', 68 | normalize = True, floc=None) --------------------------------------------------------------------------------