as.DNAbin

as.DNAbin-methods

as.DNAbin,Dna-method

This function coerces <code>Dna</code> object to <code>DNAbin</code> <code>{ape}</code> object .

DNA ANALYSIS

Provides S4 classes and methods for reading and manipulating aligned DNA sequences, supporting an indel coding methods (only simple indel coding method is available in the current version), showing base substitutions and indels, calculating absolute pairwise distances between DNA sequences, and collapses identical DNA sequences into haplotypes or inferring haplotypes using user provided absolute pairwise character difference matrix.  This package also includes S4 classes and methods for estimating genealogical relationships among haplotypes using statistical parsimony and plotting parsimony networks.

Caner Aktas

haplotypes

Manipulating DNA Sequences and Estimating Unambiguous Haplotype
Network with Statistical Parsimony

as.DNAbin-methods function

<dl> <dt>x</dt>
<dd>an object of class <code>Dna</code>.</dd> <dt>endgaps</dt>
<dd>boolean; gaps at the end of the sequences are included if this is TRUE.</dd></dl>

Arguments

<dl>
<dt><code>signature(x = "Dna")</code></dt>
<dd>coerces a <code>Dna</code> object to a <code>DNAbin</code> object.</dd></dl>

Methods

This function coerces <code>Dna</code> object to <code>DNAbin</code> <code>{ape}</code> object .

Coerces an object to a  DNAbin object — as.DNAbin-methods

<dl>

 <dt>x</dt>
<dd>an object of class <code>Dna</code>.</dd>

 <dt>endgaps</dt>
<dd>boolean; gaps at the end of the sequences are included if this is TRUE.</dd>

</dl>

<dl>
<dt><code>signature(x = "Dna")</code></dt>
<dd>coerces a <code>Dna</code> object to a <code>DNAbin</code> object.</dd>



</dl>

as.DNAbin-methods: Coerces an object to a `DNAbin` object

Description

Usage

Value

Arguments

Methods

Examples