README.md

In camult/DRP: Deregressing estimated breeding values

DRP

R package to calculate deregressed proofs, and its reliabilities and weights.

How to Install

To install this package, use devtools:

devtools::install_github("camult/DRP")

wideDRP: Deregressing estimated breeding values - One wide format file

Description

This package is easy to use and can be helpful to calculate deregressed proofs, and their reliabilities and weights.

Usage

wideDRP(Data, animalId, sireId, damId, c = 0.5, h2, traitName = NULL,
  animalEBV, sireEBV, damEBV, animalr2, sirer2, damr2)

Arguments

Argument |Description ------------- |---------------- Data | It is the name of the data file animalId | It is the name of the animal's column sireId | It is the name of the sire's column damId | It is the name of the dam's column c | It is the fraction of genetic variance not explained by markers h2 | It the heritability of the trait traitName | It the name of the trait animalEBV | It is the name of the animal's EBV column sireEBV | It is the name of the sire's EBV column damEBV | It is the name of the dam's EBV column animalr2 | It is the name of the animal's accuracy column sirer2 | It is the name of the sire's accuracy column damr2 | It is the name of the dam's accuracy column

Value

A data frame with deregressed proofs, reliability and weights.

References

Garrick, D. J., J. F. Taylor, and R. L. Fernando. 2009. Deregressing estimated breeding values and weighting information for genomic regression analyses. Genet. Sel. Evol. 41:55.

Examples

 ## Not to run ##

 ## Example from Garrick et al., (2009)

 Dataset=data.frame(animal="A1000", sire="S10", dam="D100", ebv_anim=15, ebv_sire=10, ebv_dam=2,
 r2_anim=0.68, r2_sire=0.97, r2_dam=0.36, trait="Trait", c=0.5, h2=0.25)

 wideDRP(Data     =  Dataset,
 animalId  = "animal",
 sireId    = "sire",
 damId     = "dam",
 animalEBV = "ebv_anim",
 sireEBV   = "ebv_sire",
 damEBV    = "ebv_dam",
 animalr2  = "r2_anim",
 sirer2    = "r2_sire",
 damr2     = "r2_dam",
 traitName = "trait",
 c         =  0.5,
 h2        =  0.25)

 ## End(Not run)

 ``` 

# `DRP2files`: Deregressing estimated breeding values - Two long format file

## Description


 This package is easy to use and can be helpful to calculate deregressed proofs,
 and their reliabilities and weights.


## Usage

```r
DRP2files(animalData, parentData, animalCol, sireCol, damCol, parentCol,
  ebvName, r2Name, c = 0.5, h2)

Arguments

Argument |Description ------------- |---------------- animalData | It is animal data file parentData | It is parents data file animalCol | It is the name of the animal's column sireCol | It is the name of the animal's dam column damCol | It is the name of the animal's dam column parentCol | It the name of the parents' column in the parents data file ebvName | It is the name of the EBV column r2Name | It is the name of the accuracy column c | It is the fraction of genetic variance not explained by markers h2 | It the heritability of the trait

Value

A data frame with deregressed proofs, reliability and weights.

References

Garrick, D. J., J. F. Taylor, and R. L. Fernando. 2009. Deregressing estimated breeding values and weighting information for genomic regression analyses. Genet. Sel. Evol. 41:55.

Examples

```r ## Not to run ##

## Example from Garrick et al., (2009)

animalData=data.frame(ID="Animal", sire="Sire", dam="Dam", EBV=15, r2=0.68) parentData=data.frame(ID=c("Sire", "Dam"), EBV=c(10, 2), r2=c(0.97, 0.36))

DRP2files(animalData=animalData, parentData=parentData, animalCol = "ID", sireCol = "sire", damCol = "dam", parentCol = "ID", ebvName = "EBV", r2Name = "r2", c = 0.5, h2 = 0.25)

## End(Not run)

```

camult/DRP documentation built on May 6, 2019, 3:30 p.m.