The Bioclipse Team is happy to announce the release of Bioclipse 1.2.0. This release means that the 1.x branch will no longer be supported. Version 1.2.0 contains (apart from numerous bug fixes) several exciting new features:
- An interactive console view for writing scripts in Javascript
- Extension point for descriptor calculations from chemical structures - mix different descriptor providers Read more...
- Create CDK descriptors and JoeLib descriptors using a wizard (select 1-N molecules and right-click -> Calculate descriptors). Sets up Descriptor Dataset (matrix). Read more...
- Matrix editor for editing spreadsheet-like files with custom matrix implementations (Jama is default implementation)
- Chart view for displaying charts from e.g. Matrix editor (select cells and right-click to try) Read more...
- Select cells in Matrix and visualize in Chart
- Select in chart highlight cells in MatrixEditor (only scatterplot so far)
- Spectrum feature is available again
- SpecMol allow for visual inspection and peak assignment to atoms in spectra by clicking on molecular structure
- Ability to easily add scripting commands via an extension point. Read more...
- Jmol now supports switching between models of e.g. a PDB-file (animation)
- Experimental support for BioMoby Read more...
Please note that it is not possible to upgrade to Bioclipse 1.2.0 via the online update version; it requires a new download from sourceforge.
Thanks to all developers and contributors that made this release possible!
The Bioclipse Team
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Bioclipse awarded at Trophees du Libre, 2007 |
 Ola Spjuth and Georg Greve
“Bioclipse is breaking new ground by integrating different research areas in life science and making the tools available as Free Software for everyone. It is the jury’s expectation that the project will have major impact in the future of life science research and education.”
Michel Lara, Program Manager at the Paris Innovation Center of IBM
France and member of the Jury explains: "Bioclipse is an innovative
project with high potential. The jury was completely united in the
decision that Bioclipse should receive the Special Prize".
Bioclipse project leader Ola Spjuth represented Bioclipse on the occasion.
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The Bioclipse team is proud to announce the release of Bioclipse 1.1.3. The Bioclipse Platform's download size is now only 25 Mb, and all functionality must be added using the menu alternative "Add extensions...". This action contacts the Bioclipse Update Site (http://update.bioclipse.net) and the user can select any features he'd like to install. It is also possible to perform online updates when a new version of Bioclipse is released.
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Bioclipse publication online |
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The Bioclipse project team is proud to announce that the Bioclipse article was published today in BMC Bioinformatics.
Bioclipse: An open source workbench for chemo- and bioinformatics
Ola Spjuth, Tobias Helmus, Egon L Willighagen, Stefan Kuhn, Martin Eklund, Johannes Wagener, Peter Murray-Rust, Christoph Steinbeck, Jarl E.S. Wikberg
BMC Bioinformatics 2007, 8:59 (22 February 2007)
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Abstract
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Provisional PDF
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The Bioclipse Workshop 2007 will be given in collaboration with Embrace and take place May 23-25 in Uppsala, Sweden.
The workshop will consist of lectures and hands-on labs to demonstrate the many features of Bioclipse, the power of the plugin architecture, and how to integrate new features into the framework.
Please see Workshop Homepage
for program, registration and more information. |
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