Mercurial > repos > erick-antezana > onto-toolkit

diff onto-toolkit/tools/ontology/obo2tran.xml @ 0:4484575e4186
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
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/onto-toolkit/tools/ontology/obo2tran.xml	Tue Jun 07 17:51:45 2011 -0400
@@ -0,0 +1,31 @@
+<tool id="obo2tran" name="Convert OBO to RDF (tc)" version="1.22">
+  <description>Converts an OBO formatted ontology to RDF/XML format with transitive closure</description>
+  <command interpreter="perl">/usr/bin/obo2tran.pl $input $url > $output</command>
+  <inputs>
+    <param format="text" name="input" type="data" label="Source file"/>
+    <param name="url" type="text" size="50" value="http://" label="URL" />
+  </inputs>
+  <outputs>
+    <data format="text" name="output" />
+  </outputs>
+
+  <tests>
+    <test>
+      <param name="input" value="pre_cco_core.obo"/>
+      <output name="out_file" file="pre_cco_core_tran.rdf"/>
+    </test>
+  </tests>
+
+  <help>
+This tool transforms an OBO formatted ontology (such as the Gene Ontology) to an RDF/XML one that has (full) transitive closure.
+
+More information:
+
+  ONTO-PERL: An API supporting the development and analysis of bio-ontologies
+  E. Antezana; M. Egana; B. De Baets; M. Kuiper; V. Mironov
+  Bioinformatics 2008; doi: 10.1093/bioinformatics/btn042
+
+  </help>
+
+</tool>
+