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# README

ONTO-Toolkit is a collection of Galaxy tools for managing ontologies 
that are represented in the OBO flat file format (spec 1.2 and 1.4). 

Those tools are basically wrappers around the most commonly used tools 
provided by the ONTO-PERL suite.

See also:

  1. ONTO-PERL: An API supporting the development and analysis of bio-ontologies
     Antezana E, Egana M, De Baets B, Kuiper M, Mironov V.
     Bioinformatics 2008; doi: 10.1093/bioinformatics/btn042
     
  2. ONTO-Toolkit: A set of Galaxy tools to deal with OBO-formatted ontologies
     Antezana E, Venkatesan A, Mungall C, Mironov V, Kuiper M.
     BMC Bioinformatics 2010, 11(Suppl 12):S8 doi:10.1186/1471-2105-11-S12-S8

  3. OPPL-Galaxy: Enhancing ontology exploitation in Galaxy with OPPL.
     Egana M, Fernandez-Breis JT, Antezana E.
     Semantic Web Applications and Tools for Life Sciences (SWAT4LS), London, UK (2011)


## CITING ONTO-Toolkit

If you use ONTO-Toolkit in your work, you are kindly requested to cite:

    ONTO-Toolkit: A set of Galaxy tools to deal with OBO-formatted ontologies
    Antezana E, Venkatesan A, Mungall C, Mironov V, Kuiper M.
    BMC Bioinformatics 2010, 11(Suppl 12):S8 doi:10.1186/1471-2105-11-S12-S8


## COPYRIGHT AND LICENCE

Copyright (c) 2010-2014 Erick Antezana and Bjoern Gruening.
OONTO-Toolkit is free software; you can redistribute it and/or
modify it under the terms GPL3+, see the additional LICENSE file.



## INSTALLATION

It is recommended to install this wrapper via the `Galaxy Tool Shed`.

.. _`Galaxy Tool Shed`: http://toolshed.g2.bx.psu.edu/view/bgruening/onto_perl_toolkit


## History

- v1.41.0: Initial release, forked from https://toolshed.g2.bx.psu.edu/view/erick-antezana/onto-toolkit 
with kind permission from Erick Antezana, who is the main developer of the underlying PERL library.