simplePHENOTYPES: Simulation of Pleiotropic, Linked and Epistatic Phenotypes
The number of studies involving correlated traits and the availability of tools to handle this type of data has increased considerably in the last decade. With such a demand, we need tools for testing hypotheses related to single and multi-trait (correlated) phenotypes based on many genetic settings. Thus, we implemented various options for simulation of pleiotropy and Linkage Disequilibrium under additive, dominance and epistatic models. The simulation currently takes a marker data set as an input and then uses it for simulating multiple traits as described in Fernandes and Lipka (2020) <doi:10.1186/s12859-020-03804-y>.
| Version: | 1.3.0 |
| Depends: | R (≥ 3.5.0) |
| Imports: | data.table, mvtnorm, stats, utils, SNPRelate, gdsfmt |
| Suggests: | knitr, rmarkdown |
| Published: | 2021-01-20 |
| Author: | Samuel Fernandes 
[aut, cre],
Alexander Lipka
[aut] |
| Maintainer: | Samuel Fernandes <samuelf at illinois.edu> |
| BugReports: | https://github.com/samuelbfernandes/simplePHENOTYPES/issues |
| License: | MIT + file LICENSE |
| URL: | https://github.com/samuelbfernandes/simplePHENOTYPES |
| NeedsCompilation: | no |
| Citation: | simplePHENOTYPES citation info |
| Materials: | README NEWS |
| CRAN checks: | simplePHENOTYPES results |
Documentation:
| Reference manual: | simplePHENOTYPES.pdf |
| Vignettes: |
Introduction to simplePHENOTYPES |
Downloads:
| Package source: | simplePHENOTYPES_1.3.0.tar.gz |
| Windows binaries: | r-devel: simplePHENOTYPES_1.3.0.zip, r-release: simplePHENOTYPES_1.3.0.zip, r-oldrel: simplePHENOTYPES_1.3.0.zip |
| macOS binaries: | r-release (arm64): simplePHENOTYPES_1.3.0.tgz, r-oldrel (arm64): simplePHENOTYPES_1.3.0.tgz, r-release (x86_64): simplePHENOTYPES_1.3.0.tgz, r-oldrel (x86_64): simplePHENOTYPES_1.3.0.tgz |
| Old sources: | simplePHENOTYPES archive |
Linking:
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