Personal Info

My name is Márcio Rosa da Silva and you can contact me at: mmrsva (a) gmail com

I am a PhD student at the Systems Biology group of the German Research Center for Biotechnology in Braunschweig, Germany.

I work at UNISINOS (Universidade do Vale do Rio dos Sinos), a university in south of Brazil as an assistant professor.

Cytoscape work

Plugins

I developed some plugins for Cytoscape. They can be downloaded from here:

• http://csresources.sourceforge.net/

Other tools

Are you a former user of Pajek that use Cytoscape now? Need to convert Pajek files to Cytoscape (including conversion of Pajek cluster files to Cytoscape node attributes)? See: pyNetConv

Documents

I have worked with many languages before, but Java is something new to me. I decided to learn it because I wanted to write plugins for Cytoscape. So I have run into some problems in the beginning, like: "how to start?" So I decided to write some documents about this experience. I'll put this documents here at the wiki and in the csresources page. Up to now, I wrote only one. It can be found here:

• SettingUpEclipseForPluginDevelopment

Drafts

• Cytoscape programming tips: CodeTips

• Changing default behavior of MetaNodes plugin to show only one edge between metanodes: MetaNodesOneEdgeHack

• Discussion about changing node views: ChangingNodeView

• Is it possible to LoadAttributesFilesInsideJar?

• How to make PluginsWithJython?

• How_to_use_external_libs_in_a_Cytoscape_plugin

Wiki Tips

• If you want to find all pages linking to a page in the wiki, click on the title of the page. It will return a full text search of the title.