README.md

libbionetio

This lib takes a large xml file of biological networks and decompose it using category(subsystem) information. The output can be either xml or sbml format. The c++ library was developed by Hsiang-Yun Wu.

Installing

Prerequisites

• cmake 3.4+

$ sudo apt install cmake

• tinyxml

$ sudo apt install libtinyxml-dev

• sbml

$ sudo apt install libsbml5-dev

Clone the libbionetio repository into a directory MLIBBIONETIO.

$ cd LIBBIONETIO
$ mkdir build
$ cd build
$ cmake ../
$ make

Using libbionetio

export xml format

$ ./bionetio -f xml -i "file_path/input_file_name.xml" -o "file_path/output_path_name"

or

export sbml format

$ ./bionetio -f sbml -i "file_path/input_file_name.xml" -o "file_path/output_path_name"