Tools for exploratory data analysis in Python

Overview

Dora

Exploratory data analysis toolkit for Python.

Contents

Summary

Dora is a Python library designed to automate the painful parts of exploratory data analysis.

The library contains convenience functions for data cleaning, feature selection & extraction, visualization, partitioning data for model validation, and versioning transformations of data.

The library uses and is intended to be a helpful addition to common Python data analysis tools such as pandas, scikit-learn, and matplotlib.

Setup

$ pip3 install Dora
$ python3
>>> from Dora import Dora

Usage

Reading Data & Configuration

# without initial config
>>> dora = Dora()
>>> dora.configure(output = 'A', data = 'path/to/data.csv')

# is the same as
>>> import pandas as pd
>>> dataframe = pd.read_csv('path/to/data.csv')
>>> dora = Dora(output = 'A', data = dataframe)

>>> dora.data
   A   B  C      D  useless_feature
0  1   2  0   left                1
1  4 NaN  1  right                1
2  7   8  2   left                1

Cleaning

# read data with missing and poorly scaled values
>>> import pandas as pd
>>> df = pd.DataFrame([
...   [1, 2, 100],
...   [2, None, 200],
...   [1, 6, None]
... ])
>>> dora = Dora(output = 0, data = df)
>>> dora.data
   0   1    2
0  1   2  100
1  2 NaN  200
2  1   6  NaN

# impute the missing values (using the average of each column)
>>> dora.impute_missing_values()
>>> dora.data
   0  1    2
0  1  2  100
1  2  4  200
2  1  6  150

# scale the values of the input variables (center to mean and scale to unit variance)
>>> dora.scale_input_values()
>>> dora.data
   0         1         2
0  1 -1.224745 -1.224745
1  2  0.000000  1.224745
2  1  1.224745  0.000000

Feature Selection & Extraction

# feature selection / removing a feature
>>> dora.data
   A   B  C      D  useless_feature
0  1   2  0   left                1
1  4 NaN  1  right                1
2  7   8  2   left                1

>>> dora.remove_feature('useless_feature')
>>> dora.data
   A   B  C      D
0  1   2  0   left
1  4 NaN  1  right
2  7   8  2   left

# extract an ordinal feature through one-hot encoding
>>> dora.extract_ordinal_feature('D')
>>> dora.data
   A   B  C  D=left  D=right
0  1   2  0       1        0
1  4 NaN  1       0        1
2  7   8  2       1        0

# extract a transformation of another feature
>>> dora.extract_feature('C', 'twoC', lambda x: x * 2)
>>> dora.data
   A   B  C  D=left  D=right  twoC
0  1   2  0       1        0     0
1  4 NaN  1       0        1     2
2  7   8  2       1        0     4

Visualization

# plot a single feature against the output variable
dora.plot_feature('column-name')

# render plots of each feature against the output variable
dora.explore()

Model Validation

# create random partition of training / validation data (~ 80/20 split)
dora.set_training_and_validation()

# train a model on the data
X = dora.training_data[dora.input_columns()]
y = dora.training_data[dora.output]

some_model.fit(X, y)

# validate the model
X = dora.validation_data[dora.input_columns()]
y = dora.validation_data[dora.output]

some_model.score(X, y)

Data Versioning

# save a version of your data
>>> dora.data
   A   B  C      D  useless_feature
0  1   2  0   left                1
1  4 NaN  1  right                1
2  7   8  2   left                1
>>> dora.snapshot('initial_data')

# keep track of changes to data
>>> dora.remove_feature('useless_feature')
>>> dora.extract_ordinal_feature('D')
>>> dora.impute_missing_values()
>>> dora.scale_input_values()
>>> dora.data
   A         B         C    D=left   D=right
0  1 -1.224745 -1.224745  0.707107 -0.707107
1  4  0.000000  0.000000 -1.414214  1.414214
2  7  1.224745  1.224745  0.707107 -0.707107

>>> dora.logs
["self.remove_feature('useless_feature')", "self.extract_ordinal_feature('D')", 'self.impute_missing_values()', 'self.scale_input_values()']

# use a previous version of the data
>>> dora.snapshot('transform1')
>>> dora.use_snapshot('initial_data')
>>> dora.data
   A   B  C      D  useless_feature
0  1   2  0   left                1
1  4 NaN  1  right                1
2  7   8  2   left                1
>>> dora.logs
[]

# switch back to your transformation
>>> dora.use_snapshot('transform1')
>>> dora.data
   A         B         C    D=left   D=right
0  1 -1.224745 -1.224745  0.707107 -0.707107
1  4  0.000000  0.000000 -1.414214  1.414214
2  7  1.224745  1.224745  0.707107 -0.707107
>>> dora.logs
["self.remove_feature('useless_feature')", "self.extract_ordinal_feature('D')", 'self.impute_missing_values()', 'self.scale_input_values()']

Testing

To run the test suite, simply run python3 spec.py from the Dora directory.

Contribute

Pull requests welcome! Feature requests / bugs will be addressed through issues on this repository. While not every feature request will necessarily be handled by me, maintaining a record for interested contributors is useful.

Additionally, feel free to submit pull requests which add features or address bugs yourself.

License

The MIT License (MIT)

Copyright (c) 2016 Nathan Epstein

Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions:

The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software.

THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.

Owner
Nathan Epstein
Nathan Epstein
Interactive Data Visualization in the browser, from Python

Bokeh is an interactive visualization library for modern web browsers. It provides elegant, concise construction of versatile graphics, and affords hi

Bokeh 17.1k Dec 31, 2022
Numerical methods for ordinary differential equations: Euler, Improved Euler, Runge-Kutta.

Numerical methods Numerical methods for ordinary differential equations are methods used to find numerical approximations to the solutions of ordinary

Aleksey Korshuk 5 Apr 29, 2022
Python Data. Leaflet.js Maps.

folium Python Data, Leaflet.js Maps folium builds on the data wrangling strengths of the Python ecosystem and the mapping strengths of the Leaflet.js

6k Jan 02, 2023
A set of three functions, useful in geographical calculations of different sorts

GreatCircle A set of three functions, useful in geographical calculations of different sorts. Available for PHP, Python, Javascript and Ruby. Live dem

72 Sep 30, 2022
ecoglib: visualization and statistics for high density microecog signals

ecoglib: visualization and statistics for high density microecog signals This library contains high-level analysis tools for "topos" and "chronos" asp

1 Nov 17, 2021
Tweets your monthly GitHub Contributions as Wordle grid

Tweets your monthly GitHub Contributions as Wordle grid

Venu Vardhan Reddy Tekula 5 Feb 16, 2022
Geocoding library for Python.

geopy geopy is a Python client for several popular geocoding web services. geopy makes it easy for Python developers to locate the coordinates of addr

geopy 3.8k Jan 02, 2023
A python script editor for napari based on PyQode.

napari-script-editor A python script editor for napari based on PyQode. This napari plugin was generated with Cookiecutter using with @napari's cookie

Robert Haase 9 Sep 20, 2022
:small_red_triangle: Ternary plotting library for python with matplotlib

python-ternary This is a plotting library for use with matplotlib to make ternary plots plots in the two dimensional simplex projected onto a two dime

Marc 611 Dec 29, 2022
A small timeseries transformation API built on Flask and Pandas

#Mcflyin ###A timeseries transformation API built on Pandas and Flask This is a small demo of an API to do timeseries transformations built on Flask a

Rob Story 84 Mar 25, 2022
simple tool to paint axis x and y

simple tool to paint axis x and y

G705 1 Oct 21, 2021
eoplatform is a Python package that aims to simplify Remote Sensing Earth Observation by providing actionable information on a wide swath of RS platforms and provide a simple API for downloading and visualizing RS imagery

An Earth Observation Platform Earth Observation made easy. Report Bug | Request Feature About eoplatform is a Python package that aims to simplify Rem

Matthew Tralka 4 Aug 11, 2022
A toolkit to generate MR sequence diagrams

mrsd: a toolkit to generate MR sequence diagrams mrsd is a Python toolkit to generate MR sequence diagrams, as shown below for the basic FLASH sequenc

Julien Lamy 3 Dec 25, 2021
An interactive dashboard for visualisation, integration and classification of data using Active Learning.

AstronomicAL An interactive dashboard for visualisation, integration and classification of data using Active Learning. AstronomicAL is a human-in-the-

45 Nov 28, 2022
Homework 2: Matplotlib and Data Visualization

Homework 2: Matplotlib and Data Visualization Overview These data visualizations were created for my introductory computer science course using Python

Sophia Huang 12 Oct 20, 2022
Visualizing weather changes across the world using third party APIs and Python.

WEATHER FORECASTING ACROSS THE WORLD Overview Python scripts were created to visualize the weather for over 500 cities across the world at varying di

G Johnson 0 Jun 12, 2021
Chem: collection of mostly python code for molecular visualization, QM/MM, FEP, etc

chem: collection of mostly python code for molecular visualization, QM/MM, FEP,

5 Sep 02, 2022
2D maze path solver visualizer implemented with python

2D maze path solver visualizer implemented with python

SS 14 Dec 21, 2022
:art: Diagram as Code for prototyping cloud system architectures

Diagrams Diagram as Code. Diagrams lets you draw the cloud system architecture in Python code. It was born for prototyping a new system architecture d

MinJae Kwon 27.5k Dec 30, 2022
A Scheil-Gulliver simulation tool using pycalphad.

scheil A Scheil-Gulliver simulation tool using pycalphad. import matplotlib.pyplot as plt from pycalphad import Database, variables as v from scheil i

pycalphad 6 Dec 10, 2021