clustur-package: clustur: Clustering

In clustur: Clustering

clustur: Clustering

Description

A tool that implements the clustering algorithms from 'mothur' (Schloss PD et al. (2009) \Sexpr[results=rd]{tools:::Rd_expr_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) \Sexpr[results=rd]{tools:::Rd_expr_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.

Author(s)

Maintainer: Patrick Schloss [e-mail] (ORCID) [copyright holder]

Authors:

• Gregory Johnson [e-mail] (ORCID)

• Sarah Westcott [e-mail]

See Also

Useful links:

• http://www.schlosslab.org/clustur/

• https://github.com/SchlossLab/clustur

• Report bugs at https://github.com/SchlossLab/clustur/issues

clustur documentation built on April 15, 2025, 1:33 a.m.