prep_data

This function helps user to transform and scale quantitative defined data (columns identitified from a given dataset)
for better PCA and RDA outputs.

Help to the occasional R user for synthesis and enhanced graphical visualization of redundancy analysis (RDA) and principal component analysis (PCA) methods and objects.
Inputs are : data frame, RDA (package 'vegan') and PCA (package 'FactoMineR') objects.
Outputs are : synthesized results of RDA, displayed in console and saved in tables ; displayed and saved objects of PCA graphic visualization of individuals and variables projections with multiple graphic parameters.

Gregoire Bianchetti

GABB

Facilitation of Data Preparation and Plotting Procedures for RDA
and PCA Analyses

prep_data function

<dl><dt>data</dt>
<dd>A data frame with at least one numeric column</dd>
<dt>quantitative_columns</dt>
<dd>Numeric vector of numeric columns position : c(1,2,4)</dd>
<dt>transform_data_method</dt>
<dd>Method of quantitative data transformation : "log", "sqrt4", "clr", "none"</dd>
<dt>scale_data</dt>
<dd>TRUE or FALSE. TRUE =&gt; scaling of quantitative columns</dd></dl>

Arguments

prep_data function — prep_data

<dl>

<dt>data</dt>
<dd>A data frame with at least one numeric column</dd>


<dt>quantitative_columns</dt>
<dd>Numeric vector of numeric columns position : c(1,2,4)</dd>


<dt>transform_data_method</dt>
<dd>Method of quantitative data transformation : "log", "sqrt4", "clr", "none"</dd>


<dt>scale_data</dt>
<dd>TRUE or FALSE. TRUE =&gt; scaling of quantitative columns</dd>

</dl>

prep_data: prep_data function

Description

Usage

Value

Arguments

Examples