clustur: Clustering

A tool that implements the clustering algorithms from 'mothur' (Schloss PD et al. (2009) <doi:10.1128/AEM.01541-09>). 'clustur' make use of the cluster() and make.shared() command from 'mothur'. Our cluster() function has five different algorithms implemented: 'OptiClust', 'furthest', 'nearest', 'average', and 'weighted'. 'OptiClust' is an optimized clustering method for Operational Taxonomic Units, and you can learn more here, (Westcott SL, Schloss PD (2017) <doi:10.1128/mspheredirect.00073-17>). The make.shared() command is always applied at the end of the clustering command. This functionality allows us to generate and create clustering and abundance data efficiently.

Version: 0.1.1
Depends: R (≥ 3.5.0)
Imports: Matrix, methods, Rcpp (≥ 1.0.12), utils
LinkingTo: Rcpp, testthat
Suggests: knitr, rmarkdown, testthat (≥ 3.0.0), xml2
Published: 2024-11-25
DOI: 10.32614/CRAN.package.clustur
Author: Gregory Johnson ORCID iD [aut], Sarah Westcott [aut], Patrick Schloss ORCID iD [aut, cre, cph]
Maintainer: Patrick Schloss <pschloss at umich.edu>
BugReports: https://github.com/SchlossLab/clustur/issues
License: MIT + file LICENSE
URL: http://www.schlosslab.org/clustur/, https://github.com/SchlossLab/clustur
NeedsCompilation: yes
Materials: README NEWS
CRAN checks: clustur results

Documentation:

Reference manual: clustur.pdf
Vignettes: clustur (source, R code)

Downloads:

Package source: clustur_0.1.1.tar.gz
Windows binaries: r-devel: clustur_0.1.1.zip, r-release: clustur_0.1.1.zip, r-oldrel: clustur_0.1.1.zip
macOS binaries: r-release (arm64): clustur_0.1.1.tgz, r-oldrel (arm64): clustur_0.1.1.tgz, r-release (x86_64): clustur_0.1.1.tgz, r-oldrel (x86_64): clustur_0.1.1.tgz
Old sources: clustur archive

Linking:

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