Mercurial > repos > erick-antezana > onto-toolkit
comparison onto-toolkit/tools/ontology/get_parent_terms.xml @ 0:4484575e4186
Migrated tool version 0.1 from old tool shed archive to new tool shed repository
| author | erick-antezana |
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| date | Tue, 07 Jun 2011 17:51:45 -0400 |
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| -1:000000000000 | 0:4484575e4186 |
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| 1 <tool id="get_parent_terms" name="Get the parent terms of a given OBO term" version="1.22"> | |
| 2 <description>Collects the parent terms from a given term in the given OBO ontology</description> | |
| 3 <command interpreter="perl">/usr/bin/get_parent_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="parents.txt"/> | |
| 17 </test> | |
| 18 </tests> | |
| 19 | |
| 20 <help> | |
| 21 | |
| 22 .. class:: infomark | |
| 23 | |
| 24 Collects the parent 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 parents of the Gene Ontology term with ID **GO:0000079** you will get:: | |
| 29 | |
| 30 GO:0045859 regulation of protein kinase activity | |
| 31 GO:0051726 regulation of cell cycle | |
| 32 | |
| 33 **More information** | |
| 34 | |
| 35 ONTO-PERL: An API supporting the development and analysis of bio-ontologies | |
| 36 E. Antezana; M. Egana; B. De Baets; M. Kuiper; V. Mironov | |
| 37 Bioinformatics 2008; doi: 10.1093/bioinformatics/btn042 | |
| 38 | |
| 39 </help> | |
| 40 | |
| 41 </tool> | |
| 42 |