This function computes the stability analysis and environmental stratification using factor analysis as proposed by Murakami and Cruz (2004).
Arguments
- .data
The dataset containing the columns related to Environments, Genotypes, replication/block and response variable(s)
- env
The name of the column that contains the levels of the environments.
- gen
The name of the column that contains the levels of the genotypes.
- rep
The name of the column that contains the levels of the replications/blocks
- resp
The response variable(s). To analyze multiple variables in a single procedure use, for example,
resp = c(var1, var2, var3)
.- mineval
The minimum value so that an eigenvector is retained in the factor analysis.
- verbose
Logical argument. If
verbose = FALSE
the code will run silently.
Value
An object of class ge_factanal
with the following items:
data
: The data used to compute the factor analysis.cormat
: The correlation matrix among the environments.PCA
: The eigenvalues and explained variance.FA
: The factor analysis.env_strat
: The environmental stratification.KMO
: The result for the Kaiser-Meyer-Olkin test.MSA
: The measure of sampling adequacy for individual variable.communalities
: The communalities.communalities.mean
: The communalities' mean.initial.loadings
: The initial loadings.finish.loadings
: The final loadings after varimax rotation.canonical.loadings
: The canonical loadings.scores.gen
: The scores for genotypes for the first and second factors.
References
Murakami, D.M.D., and C.D.C. Cruz. 2004. Proposal of methodologies for environment stratification and analysis of genotype adaptability. Crop Breed. Appl. Biotechnol. 4:7-11.
Author
Tiago Olivoto, tiagoolivoto@gmail.com