perform_ammi_single_trait: Perform AMMI Analysis for a Single Trait

In CropBreeding: Stability Analysis in Crop Breeding

Perform AMMI Analysis for a Single Trait

Description

This function performs Additive Main Effects and Multiplicative Interaction (AMMI) analysis for a single trait to evaluate genotype x environment interactions. It generates biplots and PC1 vs. Trait visualizations without relying on predictions.

Usage

perform_ammi_single_trait(data, env_col, gen_col, rep_col, trait_col)

Arguments

data	A data frame containing the dataset with required columns.
env_col	Character. Name of the environment column.
gen_col	Character. Name of the genotype column.
rep_col	Character. Name of the replication column.
trait_col	Character. Name of the trait column to be analyzed.

Value

A list containing:

• 'analysis': The AMMI analysis results.

• 'biplot': The biplot (PC1 vs PC2).

• 'pc1_plot': The PC1 vs Trait plot.

Examples

set.seed(123)
data <- data.frame(
  GEN = rep(c("G1", "G2", "G3", "G4"), each = 12),
  ENV = rep(c("E1", "E2", "E3"), each = 4, times = 4),
  REP = rep(1:3, times = 16),
  Y = c(rnorm(12, 50, 5), rnorm(12, 55, 5), rnorm(12, 60, 5), rnorm(12, 65, 5))
)
results <- perform_ammi_single_trait(data, "ENV", "GEN", "REP", "Y")

CropBreeding documentation built on April 4, 2025, 4:43 a.m.