cleanData

Given a host-parasite edgelist, this function can validate species names,
provide further taxonomic information (thanks to <code>taxize</code>), 
and remove records only to genus level.

Access to large host-parasite data is often hampered by the
availability of data and difficulty in obtaining it in a programmatic way
to encourage analyses. 'helminthR' provides a programmatic interface to the
London Natural History Museum's host-parasite database, one of the largest
host-parasite databases existing currently <https://www.nhm.ac.uk/research-curation/scientific-resources/taxonomy-systematics/host-parasites/>. The package allows the user
to query by host species, parasite species, and geographic location.

Tad Dallas

helminthR

Access London Natural History Museum Host-Helminth Record
Database

Tad Dallas 

cleanData function

<dl><dt>edge</dt>
<dd>Host-parasite edgelist obtained from <code>findLocation</code>,
<code>findHost</code>, or <code>findParasite</code></dd>
<dt>speciesOnly</dt>
<dd>boolean flag to remove host and parasite species
where data are only available at genus level (default = FALSE)</dd>
<dt>validateHosts</dt>
<dd>boolean flag to check host species names
against Catalogue of Life information and output taxonomic
information (default = FALSE)</dd></dl>

Arguments

Author

Clean helminth parasite occurrence data — cleanData

<dl>

<dt>edge</dt>
<dd>Host-parasite edgelist obtained from <code>findLocation</code>,
<code>findHost</code>, or <code>findParasite</code></dd>


<dt>speciesOnly</dt>
<dd>boolean flag to remove host and parasite species
where data are only available at genus level (default = FALSE)</dd>


<dt>validateHosts</dt>
<dd>boolean flag to check host species names
against Catalogue of Life information and output taxonomic
information (default = FALSE)</dd>

</dl>

cleanData: Clean helminth parasite occurrence data

Description

Usage

Value

Arguments

Author

Details