heritability: Marker-Based Estimation of Heritability Using Individual Plant or Plot Data
Version 1.2

Implements marker-based estimation of heritability when observations on genetically identical replicates are available. These can be either observations on individual plants or plot-level data in a field trial. Heritability can then be estimated using a mixed model for the individual plant or plot data. For comparison, also mixed-model based estimation using genotypic means and estimation of repeatability with ANOVA are implemented. For illustration the package contains several datasets for the model species Arabidopsis thaliana.

AuthorWillem Kruijer, with a contribution from Ian White (the internal function pin). Contains data collected by Padraic Flood and Rik Kooke.
Date of publication2016-12-22 12:29:25
MaintainerWillem Kruijer <willem.kruijer@wur.nl>
LicenseGPL-3
Version1.2
URL https://sites.google.com/site/wkruijer/
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("heritability")

Getting started

Package overview

Popular man pages

BT_LW_H: Bolting time and leaf width for the Arabidopsis hapmap...
floweringTime: Flowering time data taken from Atwell _et al._ (2010).
heritability-package: Marker-Based Estimation of Heritability Using Individual...
marker_h2_means: Compute a marker-based estimate of heritability, given...
means_floweringTime: Flowering time from Atwell _et al._ (2010): accession means.
repeatability: ANOVA-based estimates of repeatability
R_matrix: Covariance matrix of the accession means for flowering time.
See all...

All man pages Function index File listing

Man pages

BT_LW_H: Bolting time and leaf width for the Arabidopsis hapmap...
floweringTime: Flowering time data taken from Atwell _et al._ (2010).
heritability-package: Marker-Based Estimation of Heritability Using Individual...
K_arabidopsis: Marker-based relatedness matrices for 3 populations of...
leafArea: _Arabidopsis_ leaf area data for the hapmap and Swedish...
marker_h2: Compute a marker-based estimate of heritability, given...
marker_h2_means: Compute a marker-based estimate of heritability, given...
means_floweringTime: Flowering time from Atwell _et al._ (2010): accession means.
repeatability: ANOVA-based estimates of repeatability
R_matrix: Covariance matrix of the accession means for flowering time.

Functions

Files

NAMESPACE
data
data/K_hapmap.rda
data/BT_LW_H.rda
data/R_matrix_LDV.rda
data/LA_S.rda
data/LDV.rda
data/R_matrix_LD.rda
data/means_LD.rda
data/LD.rda
data/K_atwell.rda
data/datalist
data/K_swedish.rda
data/LA_H.rda
data/means_LDV.rda
R
R/repeatability.R
R/GINV.R
R/pin.R
R/marker_h2_means.r
R/AI_algorithm_weights.r
R/KinshipTransform.R
R/marker_h2.R
R/AI_algorithm.R
MD5
DESCRIPTION
man
man/BT_LW_H.Rd
man/repeatability.Rd
man/marker_h2_means.Rd
man/K_arabidopsis.Rd
man/means_floweringTime.Rd
man/heritability-package.Rd
man/leafArea.Rd
man/R_matrix.Rd
man/marker_h2.Rd
man/floweringTime.Rd
heritability documentation built on May 20, 2017, 5:27 a.m.

Questions? Problems? Suggestions? Tweet to @rdrrHQ or email at ian@mutexlabs.com.

Please suggest features or report bugs in the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.