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v 0.2: tools added for OPPL-galaxy
author easr
date Wed, 11 Apr 2012 10:33:41 +0200
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2 ====== 2 ======
3 3
4 ONTO-Toolkit is a collection of Galaxy tools for managing ontologies 4 ONTO-Toolkit is a collection of Galaxy tools for managing ontologies
5 that are represented in the OBO flat file format (spec 1.2). 5 that are represented in the OBO flat file format (spec 1.2).
6 6
7 Those tools are basically wrappers around the most commonly used tasks 7 Those tools are basically wrappers around the most commonly used tools
8 provided by the ONTO-PERL suite. 8 provided by the ONTO-PERL suite.
9 9
10 See also: 10 See also:
11 11
12 ONTO-PERL: An API supporting the development and analysis of bio-ontologies 12 1. ONTO-PERL: An API supporting the development and analysis of bio-ontologies
13 Antezana E, Egana M, De Baets B, Kuiper M, Mironov V. 13 Antezana E, Egana M, De Baets B, Kuiper M, Mironov V.
14 Bioinformatics 2008; doi: 10.1093/bioinformatics/btn042 14 Bioinformatics 2008; doi: 10.1093/bioinformatics/btn042
15
16 2. ONTO-Toolkit: A set of Galaxy tools to deal with OBO-formatted ontologies
17 Antezana E, Venkatesan A, Mungall C, Mironov V, Kuiper M.
18 BMC Bioinformatics 2010, 11(Suppl 12):S8 doi:10.1186/1471-2105-11-S12-S8
19
20 3. OPPL-Galaxy: Enhancing ontology exploitation in Galaxy with OPPL.
21 Egana M, Fernandez-Breis JT, Antezana E.
22 Semantic Web Applications and Tools for Life Sciences (SWAT4LS), London, UK (2011)
15 23
16 For installing this collection of tools: 24 For installing this collection of tools:
17 25
18 see the file INSTALL 26 see the file INSTALL
19 27
24 32
25 1. Galaxy (latest version is recommended): 33 1. Galaxy (latest version is recommended):
26 34
27 http://main.g2.bx.psu.edu/ 35 http://main.g2.bx.psu.edu/
28 36
29 2. ONTO-PERL (version >= 1.18): 37 2. ONTO-PERL (version >= 1.37):
30 38
31 http://search.cpan.org/dist/ONTO-PERL/ 39 http://search.cpan.org/dist/ONTO-PERL/
40
41 CITING ONTO-Toolkit
42 ===================
43
44 If you use ONTO-Toolkit in your work, you are kindly requested to cite:
45
46 ONTO-Toolkit: A set of Galaxy tools to deal with OBO-formatted ontologies
47 Antezana E, Venkatesan A, Mungall C, Mironov V, Kuiper M.
48 BMC Bioinformatics 2010, 11(Suppl 12):S8 doi:10.1186/1471-2105-11-S12-S8
32 49
33 COPYRIGHT AND LICENCE 50 COPYRIGHT AND LICENCE
34 ===================== 51 =====================
35 52
36 Copyright (c) 2010 Erick Antezana. All rights reserved. 53 Copyright (c) 2010-2012 Erick Antezana. All rights reserved.
37 OONTO-Toolkit is free software; you can redistribute it and/or 54 OONTO-Toolkit is free software; you can redistribute it and/or
38 modify it under the same terms as Perl itself. 55 modify it under the same terms as Perl itself.
39 56
40 N.B. Galaxy is distributed as open source under the conditions of the 57 N.B. Galaxy is distributed as open source under the conditions of the
41 Academic Free License (http://www.opensource.org/licenses/academic.php). 58 Academic Free License (http://www.opensource.org/licenses/academic.php).