Get ggplot to visualize output from check_model.fit_model_GxE

Source: R/plot.check_model_GxE.R

plot.check_model_GxE returns ggplot to visualize outputs from check_model.fit_model_GxE

# S3 method for check_model_GxE
plot(x, ...)

Arguments

x

Output from check_model.fit_model_GxE
...

further arguments passed to or from other methods

Value

  • residuals

    • histogram : histogram with the distribution of the residuals

    • qqplot

    • points

  • variability_repartition : pie with repartition of SumSq for each factor

  • variance_intra_germplasm : repartition of the residuals for each germplasm (see Details for more information)

  • pca_composante_variance : variance caught by each dimension of the PCA run on the interaction matrix

Details

S3 method.

variance_intra_germplasm represents the repartition of the residuals for each germplasm. This has to been seen with caution:

  • If germplasm have no intra-germplasm variance (i.e. pure line or hybrides) then the distribution of each germplasm represent only the micro-environmental variation.

  • If germplasm have intra-germplasm variance (i.e. population such as landraces for example) then the distribution of each germplasm represent the micro-environmental variation plus the intra-germplasm variance. With the hypothesis than the micro-environmental variation is equaly distributed on all the individuals (i.e. all the plants), the distribution of each germplasm represent the intra-germplasm variance.

See example in the book regarding AMMI and GGE.

See also

check_model.fit_model_GxE