scoreE-methods: Compute the E score

In selectSNPs: Optimal Selection of SNPs Using a Unified Local Function

Description

This function computes the average Shannon entropy (E score) as a measure of information for all the markers on one or more chromosome.

Usage

scoreE(object, ...)

## S4 method for signature 'Chrom'
scoreE(object)

## S4 method for signature 'Map'
scoreE(object, chrom)

Arguments

object	An input object, which can be a vector of map positions, a Chrom object, or a Map object.
...	Extra input parameters, as needed.
chrom	Names of the chromosomes for which the E score is to be computed; Optional.

Value

The computed E score of the input object.

Author(s)

Nick X-L Wu

References

1. Wu XL, Li H, Ferretti R, Simpson B, Walker J, Parham J, Mastro L, Qiu J, Schultz T, Tait RG Jr, Bauck S, (2010). A unified local objective function for optimally selecting SNPs on arrays for agricultural genomics applications. Anim Genet. 2020 Jan 31. doi: 10.1111/age.12916.

2. Wu XL, Xu J, Feng G, Wiggans GR, Taylor JF, He J, Qian C, Qiu J, Simpson B, Walker J, Bauck S. (2016) Optimal Design of Low-Density SNP Arrays for Genomic Prediction: Algorithm and Applications. PLoS One. 11(9):0161719. doi: 10.1371/journal.pone.0161719.

Examples

data(bov80K)
scoreE(bov80K)

selectSNPs documentation built on Feb. 28, 2020, 5:08 p.m.