Atomizer

Download Source

git clone https://github.com/RuleWorld/atomizer/

Requirements

libsbml, networkx (for state transition diagram creation), pexpect (for post atomization analysis). Check requirements.txt for specific versions of the libraries that Atomizer needs. You can also install all requirements with one command by doing

pip install -r requirements.txt

From the atomizer root directory

Installation:

This step is optional since you can now run atomizer from the sbmlTranslator python script, however you can also compile a distributable binary version of the tool using the commands

make; make install

This will place an executable called sbmlTranslator inside a bin directory located at the top level.