graphtools · Python Simple Repository Browser

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Author: Scott Gigante, Daniel Burkhardt, and Jay Stanley, Yale University

Classifiers

Development Status

4 - Beta

Environment

Console

Framework

Jupyter

Intended Audience

Developers
Science/Research

Natural Language

English

Operating System

MacOS :: MacOS X
Microsoft :: Windows
POSIX :: Linux

Programming Language

Python :: 2
Python :: 2.7
Python :: 3
Python :: 3.5
Python :: 3.6

Topic

Scientific/Engineering :: Mathematics

Tools for building and manipulating graphs in Python.

Installation

graphtools is available on pip. Install by running the following in a terminal:

pip install --user graphtools

Alternatively, graphtools can be installed using Conda (most easily obtained via the Miniconda Python distribution):

conda install -c conda-forge graphtools

Or, to install the latest version from github:

pip install --user git+git://github.com/KrishnaswamyLab/graphtools.git

For improved performance with large datasets, install with numba acceleration:

pip install --user graphtools[fast]

Usage example

The graphtools.Graph class provides an all-in-one interface for k-nearest neighbors, mutual nearest neighbors, exact (pairwise distances) and landmark graphs.

Use it as follows:

from sklearn import datasets
import graphtools
digits = datasets.load_digits()
G = graphtools.Graph(digits['data'])
K = G.kernel
P = G.diff_op
G = graphtools.Graph(digits['data'], n_landmark=300)
L = G.landmark_op