gridding_internal

internal

The 'BioTIME' database was first published in
2018 and inspired ideas, questions, project and research
article. To make it even more accessible, an R package
was created.
The 'BioTIMEr' package provides tools designed to interact with the
'BioTIME' database. The functions provided include the 'BioTIME' recommended
methods for preparing (gridding and rarefaction) time series data, a
selection of standard biodiversity metrics (including species richness,
numerical abundance and exponential Shannon) alongside examples on how to
display change over time. It also includes a sample subset of both the query
and meta data, the full versions of which are freely available on the 'BioTIME'
website <https://biotime.st-andrews.ac.uk/home.php>.

Alban Sagouis

BioTIMEr

Tools to Use and Explore the 'BioTIME' Database

Faye Moyes

Inês S. Martins

Shane A. Blowes

Viviana Brambilla

Cher F. Y. Chow

Ada Fontrodona-Eslava

Laura Antão

Jonathan M. Chase

Maria Dornelas

Anne E. Magurran

European Research Council grant AdG BioTIME 250189 

European Research Council grant PoC BioCHANGE 727440 

European Research Council grant AdG MetaCHANGE 101098020 

The Leverhulme Centre for Anthropocene Biodiversity grant RC-2018-021 

German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig 

Martin Luther University Halle-Wittenberg 

University of St Andrews 

gridding_internal function

<dl><dt>meta</dt>
<dd>(<code>data.frame</code>, <code>tibble</code> or <code>data.table</code>) BioTIME
metadata.</dd>
<dt>btf</dt>
<dd>(<code>data.frame</code>, <code>tibble</code> or <code>data.table</code>) BioTIME
data.</dd>
<dt>res</dt>
<dd>(<code>integer</code>) cell resolution. Must be in the range [0,30].
Larger values represent finer resolutions. Default: 12 (~96 sq km). Passed
to <code>dgconstruct</code>.</dd>
<dt>resByData</dt>
<dd>(<code>logical</code>) FALSE by default. If TRUE, the function
<code>dg_closest_res_to_area</code> is called to adapt <code>res</code>
 to the data extent. The new <code>res</code> value is used even if a value is
 provided byt the user.</dd>
<dt>verbose</dt>
<dd>if TRUE, a warning will be shown when one-year-long time
series are found in btf and excluded.</dd></dl>

Arguments

gridding BioTIME data — gridding_internal

<dl>

<dt>meta</dt>
<dd>(<code>data.frame</code>, <code>tibble</code> or <code>data.table</code>) BioTIME
metadata.</dd>


<dt>btf</dt>
<dd>(<code>data.frame</code>, <code>tibble</code> or <code>data.table</code>) BioTIME
data.</dd>


<dt>res</dt>
<dd>(<code>integer</code>) cell resolution. Must be in the range [0,30].
Larger values represent finer resolutions. Default: 12 (~96 sq km). Passed
to <code>dgconstruct</code>.</dd>


<dt>resByData</dt>
<dd>(<code>logical</code>) FALSE by default. If TRUE, the function
<code>dg_closest_res_to_area</code> is called to adapt <code>res</code>
 to the data extent. The new <code>res</code> value is used even if a value is
 provided byt the user.</dd>


<dt>verbose</dt>
<dd>if TRUE, a warning will be shown when one-year-long time
series are found in btf and excluded.</dd>

</dl>

gridding BioTIME data

gridding_internal: gridding BioTIME data

Description

Usage

Arguments