print.coi5p

Print a summary of a coi5p object.

internal

Designed for the cleaning, contextualization and assessment of cytochrome c
oxidase I DNA barcode data (COI-5P, or the five prime portion of COI). It contains
functions for placing COI-5P barcode sequences into a common reading frame,
translating DNA sequences to amino acids and for assessing the likelihood that a
given barcode sequence includes an insertion or deletion error. The error assessment
relies on the comparison of input sequences against nucleotide and amino acid profile
hidden Markov models (PHMMs) (for details see Durbin et al. 1998, ISBN: 9780521629713)
trained on a taxonomically diverse set of reference sequences. The functions are
provided as a complete pipeline and are also available individually for efficient and
targeted analysis of barcode data.

Cameron Nugent

coil

Contextualization and Evaluation of COI-5P Barcode Data

print.coi5p function

<dl><dt>x</dt>
<dd>A coi5p class object.</dd>
<dt>...</dt>
<dd>Additional arguments to be passed between methods.</dd></dl>

Arguments

Print a summary of a coi5p object. — print.coi5p

<dl>

<dt>x</dt>
<dd>A coi5p class object.</dd>


<dt>...</dt>
<dd>Additional arguments to be passed between methods.</dd>

</dl>

print.coi5p: Print a summary of a coi5p object.

Description

Usage

Arguments