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
DOI: 10.32614/CRAN.package.simplePHENOTYPES
Author: Samuel Fernandes ORCID iD [aut, cre], Alexander Lipka ORCID iD [aut]
Maintainer: Samuel Fernandes <samuelf at>
License: MIT + file LICENSE
NeedsCompilation: no
Citation: simplePHENOTYPES citation info
Materials: README NEWS
In views: Agriculture
CRAN checks: simplePHENOTYPES results


Reference manual: simplePHENOTYPES.pdf
Vignettes: Introduction to simplePHENOTYPES


Package source: simplePHENOTYPES_1.3.0.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
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


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