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Related Experiment Video

Updated: May 5, 2026

Large-scale Reconstructions and Independent, Unbiased Clustering Based on Morphological Metrics to Classify Neurons in Selective Populations
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clustur: an R package for clustering features using sparse distance matrices.

Gregory Johnson1, Sarah L Westcott1, Patrick D Schloss1

  • 1Department of Microbiology & Immunology, University of Michigan, Ann Arbor, Michigan, USA.

Microbiology Resource Announcements
|January 30, 2025
PubMed
Summary

The clustur R package brings mothur's de novo clustering algorithms to R, enabling operational taxonomic unit (OTU) assignment for 16S rRNA gene sequences. This integration promotes wider use and development of these microbial community analysis tools.

Keywords:
bacterial taxonomybioinformaticshierarchical clusteringmicrobiomeoperational taxonomic unitsoftware

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Area of Science:

  • Microbiology
  • Bioinformatics
  • Computational Biology

Background:

  • Accurate taxonomic classification of microbial communities is crucial for ecological and health studies.
  • Operational Taxonomic Units (OTUs) are commonly used to group similar 16S rRNA gene sequences.
  • The mothur software package provides established algorithms for de novo OTU clustering.

Purpose of the Study:

  • To implement the mothur de novo clustering algorithms within the R statistical environment.
  • To enhance accessibility and integration of these algorithms for the R user community.

Main Methods:

  • Development of the clustur R package.
  • Implementation of established de novo clustering algorithms from mothur.
  • Utilizing the R ecosystem for sequence analysis and data integration.

Main Results:

  • The clustur R package is now available, offering mothur's clustering capabilities in R.
  • Facilitates the assignment of 16S rRNA gene sequences to OTUs.

Conclusions:

  • The availability of clustur in R broadens the application and development of microbial community analysis tools.
  • Encourages integration with other R-based bioinformatics packages for comprehensive microbiome research.