Bioclips

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Bioclips
Basic data

Maintainer The Bioclipse Project
Publishing year 2005
Current  version 2.6.2
(November 4, 2016)
operating system Unixoide , mac OS X , Microsoft Windows
programming language Java
category Bioinformatics
License Eclipse Public License
bioclipse.net/

Bioclipse is a free and open source software for bio and chemoinformatics . It is based on the Eclipse Rich Client Platform and was published on November 11, 2005.

As an Eclipse plug-in, settings, help, updates and more are adopted by Eclipse. The Chemistry Development Kit has been included since the first version , a Jmol plug-in for 3D visualization of molecules and a BioJava plug-in for sequence analysis . A connection to the statistical programming language R with StatET and an extension to OpenTox were added later. Other roles include pharmacology and pharmaceutical research, and the Semantic Web for life sciences . The Bioclipse Scripting Language (BSL) is a scripting environment based on JavaScript and Groovy . It was introduced in version 2 in 2009 and enables bioclipse analyzes to be passed on.

Bioclipse is being developed in cooperation with the Proteochemometric Group, Uppsala University and the Cheminformatics and Metabolism Team around Christoph Steinbeck at the European Bioinformatics Institute and includes components from other scientific institutions such as the University of Leiden , the Karolinska Institute and the University of Maastricht . The development is supported by the International Bioclipse Association.

literature

  • Ola Spjuth u. a .: Bioclipse: an open source workbench for chemo- and bioinformatics . In: BMC Bioinformatics . tape 8 . BioMed Central, 2007, p. 59 , doi : 10.1186 / 1471-2105-8-59 (paper for version 1).
  • Ola Spjuth u. a .: Bioclipse 2: A scriptable integration platform for the life sciences . In: BMC Bioinformatics . tape 10 . BioMed Central, 2009, p. 397 , doi : 10.1186 / 1471-2105-10-397 (paper for version 2).

Web links

Individual evidence

  1. ↑ Ola Spjuth et al. a .: Bioclipse-R: integrating management and visualization of life science data with statistical analysis . In: Bioinformatics . tape 29 , no. 2 . Oxford University Press, Oxford 2013, pp. 286-289 , PMC 3546796 (free full text).
  2. ↑ Egon L. Willighagen et al. a .: Computational toxicology using the OpenTox application programming interface and Bioclipse . In: BMC Research Notes . tape 4 . BioMed Central, 2011, p. 487 , PMC 3264531 (free full text).