parse_unite_general

Parse the UNITE general release FASTA file

A set of tools for parsing, manipulating, and graphing data
classified by a hierarchy (e.g. a taxonomy).

Zachary Foster

metacoder

Tools for Parsing, Manipulating, and Graphing Taxonomic
Abundance Data

Niklaus Grunwald

Rob Gilmore

parse_unite_general function

<dl><dt>input</dt>
<dd>(<code>character</code>) One of the following:<dl>
 <dt>A character vector of sequences</dt>
<dd>See the example below for what this
 looks like. The parser <code>read_fasta</code> produces output like this.</dd></dl></dd> <dt>A list of character vectors</dt>
<dd>Each vector should have one base per element.</dd> <dt>A "DNAbin" object</dt>
<dd>This is the result of parsers like
 <code>read.FASTA</code>.</dd> <dt>A list of "SeqFastadna" objects</dt>
<dd>This is the result of parsers like
 <code>read.fasta</code>.</dd> Either "input" or "file" must be supplied but not both.</dl>
<dt>file</dt>
<dd>The path to a FASTA file containing sequences to use. Either
"input" or "file" must be supplied but not both.</dd>
<dt>include_seqs</dt>
<dd>(<code>logical</code> of length 1) If <code>TRUE</code>, include
sequences in the output object.</dd>

Arguments

Parse UNITE general release FASTA — parse_unite_general

<dl>

<dt>input</dt>
<dd>(<code>character</code>) One of the following:<dl>
 <dt>A character vector of sequences</dt>
<dd>See the example below for what this
 looks like. The parser <code>read_fasta</code> produces output like this.</dd>

 <dt>A list of character vectors</dt>
<dd>Each vector should have one base per element.</dd>

 <dt>A "DNAbin" object</dt>
<dd>This is the result of parsers like
 <code>read.FASTA</code>.</dd>

 <dt>A list of "SeqFastadna" objects</dt>
<dd>This is the result of parsers like
 <code>read.fasta</code>.</dd>

 Either "input" or "file" must be supplied but not both.

</dl></dd>


<dt>file</dt>
<dd>The path to a FASTA file containing sequences to use. Either
"input" or "file" must be supplied but not both.</dd>


<dt>include_seqs</dt>
<dd>(<code>logical</code> of length 1) If <code>TRUE</code>, include
sequences in the output object.</dd>

</dl>

parse_unite_general: Parse UNITE general release FASTA

Description

Usage

Value

Arguments

Details

See Also