NetCooperate
NetCooperate
NetCooperate is a software package for determining host-microbe and microbe-microbe cooperative potential and is available as an online tool and as a Python module.
Using
NetCooperate
Determine the Cooperate set of a network online.
Download the Python module to add NetCooperate's functionality to your custom analysis programs.
Learn how to use NetCooperate in your analysis.
Trying it out? Check out our example networks.
Understanding
NetCooperate
NetCooperate is a web tool and a software package for determining host-microbe and microbe-microbe cooperative potential. It specifically calculates two previously developed and validated metrics for species interaction: the Biosynthetic Support Score (BSS; see Borenstein and Feldman, 2009) which quantifies the ability of a host species to supply the nutritional requirements of a parasite or commensal species, and the Metabolic Complementarity Index (MCI; see Levy and Borenstein, 2013) which quantifies the complementarity of a pair of microbial organisms’ niches. NetCooperate takes as input a pair of metabolic networks, and returns the pairwise metrics as well a list of metabolic compounds complementary between the two species.
Citing
NetCooperate
Roie Levy, Rogan Carr, Anat Kreimer, Shiri Freilich, and Elhanan Borenstein. NetCooperate: A network-based tool for inferring host-microbe and microbe-microbe cooperation. BMC Bioinformatics, 16:164, 2015.