Package: EpiTest 1.0.0
EpiTest: Test for Gene x Gene Interactions in Bi-Parental Populations
Provides functions to test for gene x gene interactions in a bi-parental population of inbred lines. The data are fitted with the mixed linear model described in Rio et al. (2022) <doi:10.1101/2022.12.18.520958>, that accounts for gene x gene interactions at both the fixed effect and variance levels. The package also provides graphical tools to display the gene x gene interaction trend at the mean level and the variance component analysis.
Authors:
EpiTest_1.0.0.tar.gz
EpiTest_1.0.0.zip(r-4.5)EpiTest_1.0.0.zip(r-4.4)EpiTest_1.0.0.zip(r-4.3)
EpiTest_1.0.0.tgz(r-4.4-any)EpiTest_1.0.0.tgz(r-4.3-any)
EpiTest_1.0.0.tar.gz(r-4.5-noble)EpiTest_1.0.0.tar.gz(r-4.4-noble)
EpiTest_1.0.0.tgz(r-4.4-emscripten)EpiTest_1.0.0.tgz(r-4.3-emscripten)
EpiTest.pdf |EpiTest.html✨
EpiTest/json (API)
| # Install 'EpiTest' in R: |
| install.packages('EpiTest', repos = c('https://simonrio.r-universe.dev', 'https://cloud.r-project.org')) |
- Ancestry.list - Allele ancestries for the American maize NAM dataset
- Parents - Phenotypes for parental lines of the American maize NAM dataset
- Pheno.list - Phenotypes for the American maize NAM dataset
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 2 years agofrom:e663b3fb80. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 20 2024 |
| R-4.5-win | OK | Nov 20 2024 |
| R-4.5-linux | OK | Nov 20 2024 |
| R-4.4-win | OK | Nov 20 2024 |
| R-4.4-mac | OK | Nov 20 2024 |
| R-4.3-win | OK | Nov 20 2024 |
| R-4.3-mac | OK | Nov 20 2024 |
Exports:%>%EpiTest.fitEpiTest.plotVarList.comp
Dependencies:clicolorspacecorpcordplyrfansifarvergenericsggplot2ggrepelgluegtableisobandlabelinglatticelifecyclemagrittrMASSMatrixmgcvMM4LMMmunsellnlmepillarpkgconfigpurrrR6RColorBrewerRcppRcppEigenrlangscalesstringistringrtibbletidyselectutf8vctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Allele ancestries for the American maize NAM dataset | Ancestry.list |
| Inference and Test | EpiTest.fit |
| Display variance component or directional epistasis graphs | EpiTest.plot |
| Display directional epistasis plot | EpiTest.plot.mean |
| Display variance component graphs | EpiTest.plot.var |
| Phenotypes for parental lines of the American maize NAM dataset | Parents |
| Chi-Squared Mixtures Distribution Function | pchisqmix |
| Phenotypes for the American maize NAM dataset | Pheno.list |
| Compute covariance matrices | VarList.comp |
