Detect superbubbles in a graph in lineare time
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README.rst

Linear Superbubble Detector

https://raw.githubusercontent.com/Fabianexe/Superbubble/master/logo.png

Introduction

This project gives the reference implementation of the Linear Superbubble Dector (LSD).

Features

  • Detect superbubbles in linear time
  • Uses NetworkX as graph library
  • Can load plenty file formats (everything that NetworkX can load )
  • Have different ways to report the superbubbles
  • Simple and clean code
  • Simple to understand and reimplement

Documentation

The documentation can be found at: https://fabianexe.github.io/Superbubble

Installation

The simples way to install is using pip:

pip install LSD-Bubble

You can also download the source from https://github.com/Fabianexe/Superbubble and run the make script to install the package. These needs that setuptools are installed.

Usage

The programms needs only a path to a graph file to work:

lsd path

If as input format not edgelist is used give the format with the -f parameter

lsd path -f gml

If you want a different reporting format use -r

lsd path -r count

If you want not to detect superbubbles but week superbubbles use --week:

lsd path --week