Mercurial > repos > erick-antezana > onto-toolkit
comparison onto-toolkit/tools/ontology/get_terms_by_relationship_type.xml @ 1:d2d26d330236
v 0.2: tools added for OPPL-galaxy
author | easr |
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date | Wed, 11 Apr 2012 10:33:41 +0200 |
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0:4484575e4186 | 1:d2d26d330236 |
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1 <tool id="get_terms_by_relationship_type" name="Get the terms that are related by a concrete relationship type" version="1.22"> | |
2 <description>Collects the terms that are related by a concrete relationship type</description> | |
3 <command interpreter="perl">/usr/bin/get_terms_by_relationship_type.pl $input_ontology $rel_id > $output</command> | |
4 <inputs> | |
5 <param format="text" name="input_ontology" type="data" label="Source file"/> | |
6 <param name="rel_id" type="text" size="30" value="" label="Rel ID" /> | |
7 </inputs> | |
8 <outputs> | |
9 <data format="tabular" name="output" /> | |
10 </outputs> | |
11 | |
12 <tests> | |
13 <test> | |
14 <param name="input" value="pre_cco.obo"/> | |
15 <param name="rel_id" value="participates_in"/> | |
16 <output name="out_file" file="terms_rel_filtered.txt"/> | |
17 </test> | |
18 </tests> | |
19 | |
20 <help> | |
21 | |
22 .. class:: infomark | |
23 | |
24 Collects the terms that are related by a concrete relationship type (e.g. is_a) | |
25 | |
26 **Example** | |
27 | |
28 If you ask for terms related by the relationship type 'participates_in' you will get tab delimited records like:: | |
29 | |
30 PR:0000001 participates_in GO:0000023 | |
31 PR:0000002 participates_in GO:0033224 | |
32 PR:0000003 participates_in GO:0021109 | |
33 PR:0000004 participates_in GO:0034099 | |
34 ... | |
35 ... | |
36 | |
37 **More information** | |
38 | |
39 ONTO-PERL: An API supporting the development and analysis of bio-ontologies | |
40 E. Antezana; M. Egana; B. De Baets; M. Kuiper; V. Mironov | |
41 Bioinformatics 2008; doi: 10.1093/bioinformatics/btn042 | |
42 | |
43 </help> | |
44 | |
45 </tool> |