Package: AlphaPart 0.9.8
Gregor Gorjanc
AlphaPart: Partition/Decomposition of Breeding Values by Paths of Information
A software that implements a method for partitioning genetic trends to quantify the sources of genetic gain in breeding programmes. The partitioning method is described in Garcia-Cortes et al. (2008) <doi:10.1017/S175173110800205X>. The package includes the main function AlphaPart for partitioning breeding values and auxiliary functions for manipulating data and summarizing, visualizing, and saving results.
Authors:
AlphaPart_0.9.8.tar.gz
AlphaPart_0.9.8.tar.gz(r-4.5-noble)AlphaPart_0.9.8.tar.gz(r-4.4-noble)
AlphaPart_0.9.8.tgz(r-4.4-emscripten)AlphaPart_0.9.8.tgz(r-4.3-emscripten)
AlphaPart.pdf |AlphaPart.html✨
AlphaPart/json (API)
| # Install 'AlphaPart' in R: |
| install.packages('AlphaPart', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
- AlphaPart.ped - Sample pedigree for partition.
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:fc95407917. Checks:OK: 2. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 19 2024 |
| R-4.5-linux-x86_64 | OK | Dec 19 2024 |
Exports:.checkLevelsMap.checkListLevelsMap.isCharacterMap.unknownList.unlistLevelsMapAlphaPartAlphaPartSubsetAlphaPartSumas.levelsMapas.listLevelsMapas.object_sizescenterPopgetScaleis.levelsMapis.listLevelsMapis.object_sizesisUnknownmapLevelsmapLevels<-NAToUnknownobject.sizepedFixBirthYearpedSetBasesavePlotsEBVunknownToNAwrite.csv
Dependencies:clicolorspacedirectlabelsdplyrfansifarvergenericsggplot2gluegtableHaploSimisobandlabelinglatticelifecyclemagrittrMASSMatrixmgcvmunsellnlmepedigreepillarpkgconfigplyrquadprogR6RColorBrewerRcppreshaperlangscalestibbletidyselectutf8vctrsviridisLitewithr
AlphaPart - R implementation of the method for partitioning genetic trends
Rendered fromalphapart-vignette.Rmdusingknitr::rmarkdownon Dec 19 2024.Last update: 2022-09-23
Started: 2021-09-21
Partitioning genetic trends in mean and variance
Rendered fromalphapart-variance.Rmdusingknitr::rmarkdownon Dec 19 2024.Last update: 2022-09-23
Started: 2022-09-23
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| AlphaPart.R | AlphaPart |
| Sample pedigree for partition. | AlphaPart.ped |
| AlphaPartSubset.R | AlphaPartSubset |
| AlphaPartSum.R | AlphaPartSum |
| pedFixBirthYear.R | pedFixBirthYear |
| pedSetBase.R | pedSetBase |
| A function to plot summary of partitioned breeding values. | plot.summaryAlphaPart |
| Print method for the output of AlphaPart function. | print.AlphaPart |
| Print a plot generate by the function 'plotSummaryAlphaPart' | print.plotSummaryAlphaPart |
| Print method for objects of the class summaryAlphaPart. | print.summaryAlphaPart |
| Save plot method for 'AlphaPart' | savePlot |
| Save plot objects on the disk for permanent storage. Function 'savePlot' from the 'grDevices' package works for current page on graphical device. This is an attempt to make this function generic so that one can define 'savePlot' methods for particular needs. | savePlot.default savePlot.plotSummaryAlphaPart |
| A function to summarize AlphaPart object. | summary.AlphaPart |
| write.csv.R | write.csv write.csv.AlphaPart write.csv.default write.csv.summaryAlphaPart |