refseq

refseq,ANY-method

refseq,XStringSet-method

(Required). An instance of phyloseq-class
  that contains a phylogenetic tree. If physeq is a
  phylogenetic tree (a component data class), then it is
  returned as-is.

physeq

(Optional). Logical. Should the
  accessor stop with an error if the slot is empty
  (<code>NULL</code>)? Default <code>TRUE</code>.

errorIfNULL


  This is the suggested method for accessing the
  phylogenetic tree,
  (<code><a rd-options="Biostrings" href="/link/XStringSet?package=phyloseq&version=1.12.2&to=Biostrings" data-mini-rdoc="Biostrings::XStringSet">XStringSet</a></code>-class) from a
  phyloseq data object (<code><a rd-options="" href="/link/phyloseq-class?package=phyloseq&version=1.12.2" data-mini-rdoc="phyloseq::phyloseq-class">phyloseq-class</a></code>). Like
  other accessors (see See Also, below), the default
  behavior of this method is to stop with an error if
  <code>physeq</code> is a <code>phyloseq-class</code> but does not
  contain reference sequences (the component data type you
  are trying to access in this case).


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

Paul J McMurdie

phyloseq

Handling and analysis of high-throughput microbiome
census data.

refseq function


  This is the suggested method for accessing the
  phylogenetic tree,
  (<code><a rd-options='Biostrings' href='XStringSet'>XStringSet</a></code>-class) from a
  phyloseq data object (<code><a rd-options='' href='phyloseq-class'>phyloseq-class</a></code>). Like
  other accessors (see See Also, below), the default
  behavior of this method is to stop with an error if
  <code>physeq</code> is a <code>phyloseq-class</code> but does not
  contain reference sequences (the component data type you
  are trying to access in this case).


Retrieve reference sequences (<code><a rd-options='Biostrings' href='XStringSet'>XStringSet</a></code>-class) from object.

Retrieve reference sequences (<code><a rd-options="Biostrings" href="/link/XStringSet?package=phyloseq&version=1.12.2&to=Biostrings" data-mini-rdoc="Biostrings::XStringSet">XStringSet</a></code>-class) from object.

refseq: Retrieve reference sequences (`XStringSet`-class) from object.

Description

Usage

Arguments

Value

See Also

Examples