ingranalyze 1.5.3

Installation

You can install ingranalyze by running:

$ pip install --user ingranalyze

On Linux the executable script can then be found in ~/.local/bin

and on MacOS the script is under /Users/YOURUSERNAME/Library/Python/2.7/bin.

Usage

Typical usage is:

$ ingranalyze.py --mics --repair 5 networkfile observationfile

For more options you can ask for help as follows:

$ ingranalyze.py -h
        usage: ingranalyze.py [-h] [--mics] [--repair {1,2,3,4,5}] [--list_repairs] networkfile observationfile

        positional arguments:
          networkfile           influence graph in bioquali format
          observationfile       observations in bioquali format

        optional arguments:
          -h, --help            show this help message and exit
          --mics                compute minimal inconsistent cores
          --repair {1,2,3,4,5}  choose repair method: 1 flip observed variations, 2
                                flip influences, 3 define network nodes as inputs, 4
                                define network nodes as input in an experiment (use
                                only in case of multiple experiments), 5 add
                                influences. default is 3
          --list_repairs        compute all minimal repair sets

Samples

Sample files for yeast are available here: yeast_guelzim.net yeast_snf2.obs