RDA_outputs_synthesis

This function facilitate output analysis of vegan package RDA.

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

RDA_outputs_synthesis function

<dl><dt>RDA</dt>
<dd>The RDA object : RDA &lt;- vegan::rda(mtcars_quant~gear+carb,data=mtcars)</dd>
<dt>RDA.synth</dt>
<dd>TRUE or FALSE. If TRUE, displays the RDA model's global variance partitioning. Default is TRUE.</dd>
<dt>RDA.anova</dt>
<dd>TRUE or FALSE. If TRUE, prints the results of the vegan function anova.cca, displaying the variance partitioning by terms in the RDA model. Default is TRUE.</dd>
<dt>nbperms</dt>
<dd>Numeric number of permutations used by the RDA.anova function. Default is 1000.</dd>
<dt>RDA.Table</dt>
<dd>TRUE or FALSE. TRUE : calculate and display the variance percentage of considered factor / total unconstrained variance. Default : TRUE.</dd></dl>

Arguments

RDA_outputs_synthesis function — RDA_outputs_synthesis

<dl>

<dt>RDA</dt>
<dd>The RDA object : RDA &lt;- vegan::rda(mtcars_quant~gear+carb,data=mtcars)</dd>


<dt>RDA.synth</dt>
<dd>TRUE or FALSE. If TRUE, displays the RDA model's global variance partitioning. Default is TRUE.</dd>


<dt>RDA.anova</dt>
<dd>TRUE or FALSE. If TRUE, prints the results of the vegan function anova.cca, displaying the variance partitioning by terms in the RDA model. Default is TRUE.</dd>


<dt>nbperms</dt>
<dd>Numeric number of permutations used by the RDA.anova function. Default is 1000.</dd>


<dt>RDA.Table</dt>
<dd>TRUE or FALSE. TRUE : calculate and display the variance percentage of considered factor / total unconstrained variance. Default : TRUE.</dd>

</dl>

RDA_outputs_synthesis: RDA_outputs_synthesis function

Description

Usage

Value

Arguments

Examples