crossGP: Cross validation
In AparicioJohan/GS: Genomic Prediction

Description Usage Arguments Value Author(s) Examples

crossGP returns the cross validation usign differents methodologies as implemented in BGLR, ASReml and sommer package.

1	crossGP(geno, samp, phen, prior, niter = 50, testporc = 0.3, traits = NULL)

`geno`	The name of the file which the genotypic-data are to be read from or a matrix in the r-environment. Data coded as (-1,0,1)
`samp`	The name of the file which the genotypes are to be read from or a vector with the genotype names
`phen`	The name of the file which the phenotypic-data are to be read from or a data.frame in the r-environment.
`prior`	A string vector with some of those models c("ASReml", "RKHS", "sommer", "BRR", "BayesA", "BayesB", "BayesC", "BLasso")
`niter`	A numeric from 0 to 100
`testporc`	A numeric from 0 to 1
`traits`	A string vector with the traits names

list with two elements

Johan Aparicio, j.aparicio@cgiar.org

# library(sommer)
# data(DT_cpdata)
#
# geno <- GT_cpdata
# samp <- rownames(GT_cpdata)
# phen <- DT_cpdata
#
# crossGP(geno,samp,phen,prior = "sommer", niter=2,testporc = 0.3,traits = names(phen)[5])

#-----------------------

# geno <- "D:/OneDrive - CGIAR/2020/imputed_rrBLUP.in"
# samp <- "D:/OneDrive - CGIAR/2020/imputed_rrBLUP_samples.txt"
# phen <- "D:/OneDrive - CGIAR/2020/Phenotypic_Analysis.csv"
#
# crossGP(geno,samp,phen,prior = "sommer", niter=2,testporc = 0.3,traits = "Pal13C_drt")