geophagus_info

This is the associated metadata for the 354 sequences of the mitochondrial gene
cytochrome c oxidase subunit I (COI-5P) of the Geophagus sensu stricto species
group downloaded from GenBank and stored in geophagus.

datasets

Helpers functions to process, analyse, and visualize the output of
single locus species delimitation methods.
For full functionality, please install suggested software at
<https://legallab.github.io/delimtools/articles/install.html>.

Pedro Bittencourt

delimtools

Helper Functions for Species Delimitation Analysis

Rupert Collins

Tomas Hrbek

geophagus_info function

A data frame with 354 rows and 19 columns:<dl>
<dt>scientificName</dt>
<dd>scientific name</dd><dt>scientificNameGenBank</dt>
<dd>scientific name following NCBI taxonomy</dd><dt>class</dt>
<dd>class</dd><dt>order</dt>
<dd>order</dd><dt>family</dt>
<dd>family</dd><dt>genus</dt>
<dd>genus</dd><dt>dbid</dt>
<dd>NCBI Nucleotide Database internal ID</dd><dt>gbAccession</dt>
<dd>NCBI Nucleotide Database accession number</dd><dt>gene</dt>
<dd>Gene acronym</dd><dt>length</dt>
<dd>Sequence length in base pairs (bp)</dd><dt>organelle</dt>
<dd>Organelle from which gene was sequenced</dd><dt>catalogNumber</dt>
<dd>An identifier for the record within a data set or collection</dd><dt>country</dt>
<dd>Name of the Country followed by sampling locality (when available)</dd><dt>publishedAs</dt>
<dd>Title of the article which generated the sequences</dd><dt>publishedIn</dt>
<dd>Journal which published the article</dd><dt>publishedBy</dt>
<dd>A person, group, or organization responsible for depositing the sequence</dd><dt>date</dt>
<dd>Date published</dd><dt>decimalLatitude</dt>
<dd>Latitude in decimal degrees</dd><dt>decimalLongitude</dt>
<dd>Longitude in decimal degrees</dd>
</dl>

Format

Geophagus Earthearts Associated Metadata — geophagus_info

A data frame with 354 rows and 19 columns:<dl>
<dt>scientificName</dt>
<dd>scientific name</dd>

<dt>scientificNameGenBank</dt>
<dd>scientific name following NCBI taxonomy</dd>

<dt>class</dt>
<dd>class</dd>

<dt>order</dt>
<dd>order</dd>

<dt>family</dt>
<dd>family</dd>

<dt>genus</dt>
<dd>genus</dd>

<dt>dbid</dt>
<dd>NCBI Nucleotide Database internal ID</dd>

<dt>gbAccession</dt>
<dd>NCBI Nucleotide Database accession number</dd>

<dt>gene</dt>
<dd>Gene acronym</dd>

<dt>length</dt>
<dd>Sequence length in base pairs (bp)</dd>

<dt>organelle</dt>
<dd>Organelle from which gene was sequenced</dd>

<dt>catalogNumber</dt>
<dd>An identifier for the record within a data set or collection</dd>

<dt>country</dt>
<dd>Name of the Country followed by sampling locality (when available)</dd>

<dt>publishedAs</dt>
<dd>Title of the article which generated the sequences</dd>

<dt>publishedIn</dt>
<dd>Journal which published the article</dd>

<dt>publishedBy</dt>
<dd>A person, group, or organization responsible for depositing the sequence</dd>

<dt>date</dt>
<dd>Date published</dd>

<dt>decimalLatitude</dt>
<dd>Latitude in decimal degrees</dd>

<dt>decimalLongitude</dt>
<dd>Longitude in decimal degrees</dd>


</dl>

geophagus_info: Geophagus Earthearts Associated Metadata

Description

Usage

Arguments

Format