ammiBayes.gen.plot: Plot genotype effects from ammiBayes object

In ammiBayes: Bayesian Ammi Model for Continuous Data

Plot genotype effects from ammiBayes object

Description

Plot the posterior mean for an ammiBayes object

Usage

ammiBayes.gen.plot(x, lwd=1, lty=1, pch=18, method="bars",
 				   col=NULL, ylim=NULL, draw.mean=TRUE, col.mean="red",
				   lty.mean=2, xlab="Genotype", ylab=NULL, gen.names=NULL)

Arguments

x	An object from gen.effects function.
lwd	A line width, a positive number, default is 1.
lty	The line type. Default is 1.
pch	Either an integer specifying a symbol or a single character to be used as the default in plotting points.
method	Defaults to "bars" to draw error-bar type plots. See panel.xYplot.
col	Define the color of genotype bands. See xYplot.
ylim	A numeric vector of length 2 giving minimum and maximum for the y-axis.
draw.mean	If TRUE, a line representing the average of all genotypes is plotted on the graph.
col.mean	Define the color for the average of all genotypes.
lty.mean	Line type for the average of all genotypes.
xlab	Label for the x-axis.
ylab	Label for the y-axis.
gen.names	Define the names of genotypes on the x-axis. By default are the levels of the Genotypes.

Author(s)

Luciano A. Oliveira
Carlos P. Silva
Cristian T. E. Mendes
Alessandra Q. Silva
Joel J. Nuvunga
Marcio Balestre
Julio S. S. Bueno-Filho
Fabio M. Correa

References

OLIVEIRA,L.A.; SILVA, C. P.; NUVUNGA, J. J.; SILVA, A. Q.; BALESTRE, M. Credible Intervals for Scores in the AMMI with Random Effects for Genotype. Crop Science, v. 55, p. 465-476, 2015. doi: https://doi.org/10.2135/cropsci2014.05.0369

SILVA, C. P.; OLIVEIRA, L. A.; NUVUNGA, J. J.; PAMPLONA, A. K. A.; BALESTRE, M. A Bayesian Shrinkage Approach for AMMI Models. Plos One, v. 10, p. e0131414, 2015. doi: https://doi.org/10.1371/journal.pone.0131414.

See Also

xYplot

Examples

library(ammiBayes)
data(ammiData)


Env  <- factor(ammiData$amb)
Rep <- factor(ammiData$rep)
Gen  <- factor(ammiData$gen)
Y  <- ammiData$prod

model <- ammiBayes(Y=Y, Gen=Gen, Env=Env, Rep=Rep, iter=10, burn=1, jump=2, chains=2)

genot.effects <- gen.effects(model)


ammiBayes.gen.plot(genot.effects)

ammiBayes documentation built on June 8, 2025, 10:02 a.m.