iggy 0.1dev

Influence graph analysis, consistency check, repair and prediction

Installation

You can install iggy by running:

$ pip install --user iggy

The executable scripts can then be found in ~/.local/bin.

Usage

Typical usage is:

$ iggy.py network.sif observation.obs --show_colorings 10

For more options you can ask for help as follows:

$ iggy.py -h
usage: iggy.py [-h] [--autoinputs] [--scenfit] [--show_colorings SHOW_COLORINGS] [--show_predictions] networkfile observationfile

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

optional arguments:
  -h, --help            show this help message and exit
  --autoinputs          compute possible inputs of the network (nodes with
                        indegree 0)
  --scenfit             compute scenfit of the data, default is mcos
  --show_colorings SHOW_COLORINGS
                        number of colorings to print, default is OFF, 0=all
  --show_predictions    show predictions

The second script contained is opt_graph.py Typical usage is:

$ opt_graph.py network.sif observations_dir/ --show_repairs 10

For more options you can ask for help as follows:

$ opt_graph.py -h
usage: opt_graph.py [-h] [--autoinputs] [--show_repairs SHOW_REPAIRS] [--opt_graph] networkfile observationfiles

positional arguments:
  networkfile           influence graph in SIF format
  observationfiles      directory of observations in bioquali format

optional arguments:
  -h, --help            show this help message and exit
  --autoinputs          compute possible inputs of the network (nodes with
                        indegree 0)
  --show_repairs SHOW_REPAIRS
                        number of repairs to show, default is OFF, 0=all
  --opt_graph           compute opt-graph repairs (allows also adding edges),
                        default is only removing edges

Samples

Sample files available here:: iggy_demo_data.tar.gz