23 February 2010

A Mysql user defined function (UDF) for Gene Ontology (GO)

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In this post I'll create a Mysql Defined function (UDF) answering if a defined GO term is a descendant of another term. This post is n...
18 February 2010

eXist: The Open Source Native XML Database : My notebook

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In a previous post , I've played with Oracle's BerkeleyDB-XML . Here, I used with eXist-db , an open source database management syst...
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17 February 2010

The path from EgonWillighagen to Jandot : Neo4j , a graph API for java: my notebook.

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neo4j "Neo4j is a graph database. It is an embedded, disk-based, fully transactional Java persistence engine that stores data structur...
2 comments:
15 February 2010

Semantic Web Services with the SADI Framework: my notebook.

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At Biohackathon2010 , Mark Wilkinson and Luke McCarthy introduced The SADI Framework . From sadiframework.org : SADI is a framework for ...
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Another Tiny tool : RDF-to-Dot

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RDFToDot Transforms an XML/RDF input to Graphviz-dot ( http://www.graphviz.org ) Usage -h help; This screen. -p {prefix} {uri} add this...
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12 February 2010

Processing large XML documents with XSLT

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I've resurrected an old java program called xsltstream which might be useful for biohackathon2010 . This program applies a XSLT styles...
3 comments:
11 February 2010

Freebase and Biohackathon 2010

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This post is a quick overview of Freebase for the participants of biohackathon2010 who attended François Belleau 's lecture this morni...
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Mapping RDBMS to RDF with D2RQ (yet another geeky title)

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One of the coolest thing have seen here at Biohackathon 2010 is D2RQ (thank you Jan !): D2RQ is a declarative language to describe mappin...
1 comment: