Reminder: my talk in Frankfurt on Monday; Want to meet up?

Quick and short reminder about my Open Knowledge: Reproducibility in Cheminformatics with Open Data, Open Source and Open Standards talk on Monday. The session is great anyway, with other talks from Cameron, John and someone from Berlin on a Open Access HTS system (which reminds me to talk about the Open Access and that the term is tainted). 1 minute read

PLoS ONE and Chemical blogspace: About no Impact yet

Journals in chemistry are pretty well fixed. JACS, Angewandte Chemie are clear leaders. Nature and Science if you have something that will attract many scientists. For the rest many smaller journals exist more dedicated at particular research areas. 1 minute read

Bioclipse and SPARQL end points #2: MyExperiment

RDF and SPARQL are two really useful Open Standards. Bioclipse-RDF is a plugin for Bioclipse that provide RDF functionality, among which using remote SPARQL end points. 3 minute read

The Social Web does not wait for Bioclipse... here comes Google Wave

Google Wave is going to change the web. It’s the end of Google Docs, and likely many other services. It’s going to be Open Source and being a Wave Provider will not be restricted to Google. This will be enough to make this a success. If you haven’t watched the full video demo yet, please have a look yourself: less than 1 minute read

Bioclipse enters the social web

The Open Notebook Science Solubility project in particular is keen on sharing results using the Social Web. Last week I reported about the plugin I wrote to access the data on FriendFeed. less than 1 minute read

Bioclipse and SPARQL end points

Last week, there was a very interesting thread on the DBPedia mailing list, on using Java for doing remote SPARQL queries. This was one of the features still missing in bioclipse.rdf. Richard Cyganiak replied pointing the code in Jena which conveniently does this and which bioclipse.rdf is already using anyway. Next, Fred Durao even gave a full code example relieving me from any further research, resulting in sparqlRemote() now implemented in the rdf manager: less than 1 minute read

Making Bioclipse Development easier: the New Manager Wizard

Today, Jonathan, Carl, Arvid and I made writing managers for Bioclipse a bit easier. Plug-in development Eclipse in itself is already tricky to learn, and the use of Spring by the Bioclipse managers is not helping. And because very soon two new people will be starting with writing a new manager rather soon, we thought it was time to lower the activation barrier a bit. 2 minute read