NetCooperate statistics

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NetCooperate specifications

Information


Unique identifier OMICS_12613
Name NetCooperate
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data The metabolic networks of two species, each encoded as a directed graph with nodes representing compounds and edges connecting substrates to products.
Output data The pairwise metrics as well a list of metabolic compounds complementary between the two species.
Operating system Unix/Linux, Mac OS, Windows
Programming languages Python
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Documentation


Maintainer


  • person_outline Elhan Borenstein <>

Information


Unique identifier OMICS_12613
Name NetCooperate
Interface Web user interface
Restrictions to use None
Input data The metabolic networks of two species, each encoded as a directed graph with nodes representing compounds and edges connecting substrates to products.
Programming languages Python
License GNU General Public License version 3.0
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Elhan Borenstein <>

Publication for NetCooperate

NetCooperate in publication

PMCID: 5445277
PMID: 28545448
DOI: 10.1186/s12859-017-1696-7

[…] genera appeared in the phi-base dataset. finally, we only selected species whose oxygen requirement data were available in the database., the bss and mci values between species were calculated using netcooperate software [], downloaded from the website (depts.washington.edu/elbogs/netcooperate/netcooperateweb.cgi) on september 2, 2016. the bss is defined as the fraction of the seed set […]


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NetCooperate institution(s)
Department of Genome Sciences, University of Washington, Seattle, WA, USA; Department of Electrical Engineering & Computer Science, Center for Computational Biology, UC Berkeley, Berkeley, CA, USA; Department of Bioengineering and Therapeutic Sciences, UCSF, San Francisco, CA, USA; Newe Ya’ar Research Center, Agricultural Research Organization, Ramat Yishay, Israel; Department of Computer Science and Engineering, University of Washington, Seattle, WA, USA; Santa Fe Institute, Santa Fe, NM, USA
NetCooperate funding source(s)
This work was supported in part by New Innovator Award DP2 AT007802-01.

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