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comparison onto-toolkit/tools/ontology/get_child_terms.xml @ 0:4484575e4186

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Migrated tool version 0.1 from old tool shed archive to new tool shed repository
author erick-antezana
date Tue, 07 Jun 2011 17:51:45 -0400
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1 <tool id="get_child_terms" name="Get the child terms of a given OBO term" version="1.22">
2 <description>Collects the child terms from a given term in the given OBO ontology</description>
3 <command interpreter="perl">/usr/bin/get_child_terms.pl $input_ontology $term_id > $output</command>
4 <inputs>
5 <param format="text" name="input_ontology" type="data" label="Source file"/>
6 <param name="term_id" type="text" size="30" value="" label="Term 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_core.obo"/>
15 <param name="term_id" value="CCO:P0000020"/>
16 <output name="out_file" file="children.txt"/>
17 </test>
18 </tests>
19
20 <help>
21
22 .. class:: infomark
23
24 Collects the child terms (list of IDs) from a given term (existing ID) in the given OBO ontology.
25
26 **Example**
27
28 If you ask for the children of the Gene Ontology term with ID **GO:0000079** you will get::
29
30 GO:0031660 regulation of cyclin-dependent protein kinase activity during G2/M
31 GO:0031657 regulation of cyclin-dependent protein kinase activity during G1/S
32 GO:0045737 positive regulation of cyclin-dependent protein kinase activity
33 GO:0045736 negative regulation of cyclin-dependent protein kinase activity
34
35 **More information**
36
37 ONTO-PERL: An API supporting the development and analysis of bio-ontologies
38 E. Antezana; M. Egana; B. De Baets; M. Kuiper; V. Mironov
39 Bioinformatics 2008; doi: 10.1093/bioinformatics/btn042
40
41 </help>
42
43 </tool>
44