otu_table-class

Because orientation of these tables can vary by method, the orientation is
defined explicitly in the <code>taxa_are_rows</code> slot (a logical).
The <code>otu_table</code> class inherits the <code><a href="/link/matrix?package=phyloseq&version=1.16.2" rd-options="" data-mini-rdoc="phyloseq::matrix">matrix</a></code> class to store
abundance values.
Various standard subset and assignment nomenclature has been extended to apply
to the <code>otu_table</code> class, including square-bracket, <code><a href="/link/t?package=phyloseq&version=1.16.2" rd-options="" data-mini-rdoc="phyloseq::t">t</a></code>, etc.

phyloseq provides a set of classes and tools
    to facilitate the import, storage, analysis, and
    graphical display of microbiome census data.

Paul McMurdie

phyloseq

Handling and analysis of high-throughput microbiome
    census data

otu_table-class function

Because orientation of these tables can vary by method, the orientation is
defined explicitly in the <code>taxa_are_rows</code> slot (a logical).
The <code>otu_table</code> class inherits the <code><a href="matrix" rd-options="">matrix</a></code> class to store
abundance values.
Various standard subset and assignment nomenclature has been extended to apply
to the <code>otu_table</code> class, including square-bracket, <code><a href="t" rd-options="">t</a></code>, etc.

otu_table-class: The S4 class for storing taxa-abundance information.

Description

Arguments

Details