clustur: an R package for clustering features using sparse distance matrices

Gregory Johnson; Sarah L. Westcott; Patrick D. Schloss

doi:10.1128/mra.01238-24

January 30, 2025Microbiology Resource AnnouncementsOpen Access

clustur: an R package for clustering features using sparse distance matrices

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Key Points

The aim is to make clustering algorithms for 16S rRNA sequence analysis accessible in the R environment.
Developed an R package called Clustur for clustering features.
Utilized algorithms from the mothur software for operational taxonomic unit assignment.
Focused on integrating clustering approaches with sparse distance matrices.
Facilitates broader application of 16S rRNA clustering methods in R.
Encourages further development and accessibility of clustering algorithms.
Enhances integration of existing tools within the R ecosystem.

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Implication

Demonstrates feature clustering using sparse distance matrices, highlighting integration with R packages.

Abstract

clustering algorithms found in the mothur software package for assigning 16S rRNA gene sequences to operational taxonomic units (OTUs). Making these algorithms accessible through the R ecosystem will foster their further development, broader application, and integration within other R packages.

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Johnson et al. (2025) studied this question.

synapsesocial.com/papers/6a208d13fd0964e87e4d1743 https://doi.org/10.1128/mra.01238-24

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clustur: an R package for clustering features using sparse distance matrices

Key Points

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Implication

Abstract

Discussion

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clustur: an R package for clustering features using sparse distance matrices

Key Points

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Implication

Abstract

Discussion

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