GibbsCluster

The software tool 'GibbsCluster' is designed for unsupervised motif discovery in peptide data. It clusters and aligns peptide sequences containing multiple sequence motifs using Gibbs sampling. The updated version, GibbsCluster 2.0, incorporates insertion and deletions accounting for variations in motif length. The program provides the optimal number of clusters, sequence alignment, and sequence motif characterizing each cluster. Customizable parameters include adjustable penalties for small clusters and overlapping groups and a trash cluster to remove outliers.

Topic

Molecular interactions, pathways and networks;Small molecules;Sequence sites, features and motifs

Detail

  • Operation: Sequence motif discovery;Clustering;Deisotoping

  • Software interface: Web application;Graphical user interface

  • Language: -

  • License: -

  • Cost: Free

  • Version name: Version 2.0f

  • Credit: National Institutes of Health, Department for International Development of the United, Bill and Melinda Gates Foundation, Consejo Nacional de Investigaciones, Agencia Nacional de Promoci, Argentina, Argentinean national research council (CONICET).

  • Input: -

  • Output: -

  • Contact: mniel@cbs.dtu.dk;webmaster@cbs.dtu.dk

  • Collection: -

  • Maturity: Stable

Publications

  • GibbsCluster: unsupervised clustering and alignment of peptide sequences.
  • Andreatta M, et al. GibbsCluster: unsupervised clustering and alignment of peptide sequences. GibbsCluster: unsupervised clustering and alignment of peptide sequences. 2017; 45:W458-W463. doi: 10.1093/nar/gkx248
  • https://doi.org/10.1093/nar/gkx248
  • PMID: 28407089
  • PMC: PMC5570237

Download and documentation

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