jClust: a clustering and visualization toolbox

Bioinformatics. 2009 Aug 1;25(15):1994-6. doi: 10.1093/bioinformatics/btp330. Epub 2009 May 19.


jClust is a user-friendly application which provides access to a set of widely used clustering and clique finding algorithms. The toolbox allows a range of filtering procedures to be applied and is combined with an advanced implementation of the Medusa interactive visualization module. These implemented algorithms are k-Means, Affinity propagation, Bron-Kerbosch, MULIC, Restricted neighborhood search cluster algorithm, Markov clustering and Spectral clustering, while the supported filtering procedures are haircut, outside-inside, best neighbors and density control operations. The combination of a simple input file format, a set of clustering and filtering algorithms linked together with the visualization tool provides a powerful tool for data analysis and information extraction.

Availability: http://jclust.embl.de/.

Supplementary information: Supplementary data are available at Bioinformatics online.

MeSH terms

  • Cluster Analysis
  • Computational Biology / methods*
  • Databases, Genetic
  • Pattern Recognition, Automated / methods*
  • Software*