PopVar: Genomic Breeding Tools: Genetic Variance Prediction and Cross-Validation

The main attribute of 'PopVar' is the prediction of genetic variance in bi-parental populations, from which the package derives its name. 'PopVar' contains a set of functions that use phenotypic and genotypic data from a set of candidate parents to 1) predict the mean, genetic variance, and superior progeny value of all, or a defined set of pairwise bi-parental crosses, and 2) perform cross-validation to estimate genome-wide prediction accuracy of multiple statistical models. More details are available in Mohammadi, Tiede, and Smith (2015). Crop Sci. doi:10.2135/cropsci2015.01.0030. A dataset 'think_barley.rda' is included for reference and examples.

Author
Tyler Tiede [aut, cre], Mohsen Mohammadi [ctb], Kevin P. Smith [ctb]
Date of publication
2015-07-08 14:46:25
Maintainer
Tyler Tiede <tyler.tiede7@gmail.com>
License
GPL-3
Version
1.2.1

View on CRAN

Man pages

pop.predict
A genome-wide procedure for predicting genetic variance and...
PopVar-package
Genomic breeding tools to 1) predict standard statistics and...
think_barley.rda
An example barley dataset
x.val
Estimate genome-wide prediction accuacy using...

Files in this package

PopVar
PopVar/NAMESPACE
PopVar/data
PopVar/data/think_barley.rda
PopVar/R
PopVar/R/XValidate_Ind_function_4.28.15.R
PopVar/R/Internal_PopVar_functions_4.28.15.R
PopVar/R/pop.predict_function_4.28.15.R
PopVar/R/XValidate.nonInd_function_4.28.15.R
PopVar/R/PopVar-package.R
PopVar/R/x.val_function_4.28.15.R
PopVar/R/think_barley_dataset.R
PopVar/MD5
PopVar/DESCRIPTION
PopVar/man
PopVar/man/x.val.Rd
PopVar/man/think_barley.rda.Rd
PopVar/man/pop.predict.Rd
PopVar/man/PopVar-package.Rd