Package: heritability 1.4
heritability: Marker-Based Estimation of Heritability Using Individual Plant or Plot Data
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.
Authors:
heritability_1.4.tar.gz
heritability_1.4.zip(r-4.5)heritability_1.4.zip(r-4.4)heritability_1.4.zip(r-4.3)
heritability_1.4.tgz(r-4.4-any)heritability_1.4.tgz(r-4.3-any)
heritability_1.4.tar.gz(r-4.5-noble)heritability_1.4.tar.gz(r-4.4-noble)
heritability_1.4.tgz(r-4.4-emscripten)heritability_1.4.tgz(r-4.3-emscripten)
heritability.pdf |heritability.html✨
heritability/json (API)
| # Install 'heritability' in R: |
| install.packages('heritability', repos = c('https://wtkr.r-universe.dev', 'https://cloud.r-project.org')) |
- BT_LW_H - Bolting time and leaf width for the Arabidopsis hapmap population.
- K_atwell - Marker-based relatedness matrices for 3 populations of Arabidopsis thaliana.
- K_hapmap - Marker-based relatedness matrices for 3 populations of Arabidopsis thaliana.
- K_swedish - Marker-based relatedness matrices for 3 populations of Arabidopsis thaliana.
- LA_H - _Arabidopsis_ leaf area data for the hapmap and Swedish regmap population.
- LA_S - _Arabidopsis_ leaf area data for the hapmap and Swedish regmap population.
- LD - Flowering time data taken from Atwell _et al._ (2010).
- LDV - Flowering time data taken from Atwell _et al._ (2010).
- R_matrix_LD - Covariance matrix of the accession means for flowering time.
- R_matrix_LDV - Covariance matrix of the accession means for flowering time.
- means_LD - Flowering time from Atwell _et al._ (2010): accession means.
- means_LDV - Flowering time from Atwell _et al._ (2010): accession means.
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 1 years agofrom:2224b2dcd6. Checks:OK: 3 NOTE: 4. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 16 2024 |
| R-4.5-win | NOTE | Nov 16 2024 |
| R-4.5-linux | NOTE | Nov 16 2024 |
| R-4.4-win | NOTE | Nov 16 2024 |
| R-4.4-mac | NOTE | Nov 16 2024 |
| R-4.3-win | OK | Nov 16 2024 |
| R-4.3-mac | OK | Nov 16 2024 |
Exports:marker_h2marker_h2_meansrepeatability
Dependencies:MASS
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Marker-Based Estimation of Heritability Using Individual Plant or Plot Data. | heritability-package heritability |
| Bolting time and leaf width for the Arabidopsis hapmap population. | BT_LW_H |
| Flowering time data taken from Atwell _et al._ (2010). | floweringTime LD LDV |
| Marker-based relatedness matrices for 3 populations of Arabidopsis thaliana. | K_atwell K_hapmap K_swedish |
| _Arabidopsis_ leaf area data for the hapmap and Swedish regmap population. | LA_H LA_S leafArea |
| Compute a marker-based estimate of heritability, given phenotypic observations at individual plant or plot level. | marker_h2 |
| Compute a marker-based estimate of heritability, given genotypic means. | marker_h2_means |
| Flowering time from Atwell _et al._ (2010): accession means. | means_floweringTime means_LD means_LDV |
| Covariance matrix of the accession means for flowering time. | R_matrix R_matrix_LD R_matrix_LDV |
| ANOVA-based estimates of repeatability | repeatability |
