rxncon2stategraph.py

rxncon2stategraph.py

rxncon2stategraph.py generates a "state graph" to represent a rxncon system. This "state graph" is much simpler than the regulator graph and is intended to easily show the flow of information through the system (similar to a classic biologist's graph).

Running

Run rxncon2stategraph.py using python3 extract_modules.py <excel file> --<parameter> <text>

Usage: rxncon2stategraph.py [OPTIONS] EXCEL_FILE

Options:
  --output TEXT        Base name for output files. Default: 'fn' for input
                       file 'fn.xls'
  --layout PATH        xgmml file containing layout information, which should
                       be transferred to the new file.
  --base TEXT          Type of graph (reg or sr) to use as a base from which
                       to generate state graph. Default: sr
  -v, --verbosity LVL  Either CRITICAL, ERROR, WARNING, INFO or DEBUG
  --help               Show this message and exit.