Package: simplePHENOTYPES
Date: 2026-09-29
Type: Package
Version: 2.0.0.9003
Title: Simulation of Pleiotropic, Linked and Epistatic Phenotypes
Description: 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>.
Authors@R: c(
    person("Samuel", "Fernandes", email = "fernandessb101@gmail.com", role = c("aut", "cre"),
    	comment = c(ORCID = "0000-0001-8269-535X")),
    person("Alexander", "Lipka", email = "alipka@illinois.edu" , role = "aut",
    	comment = c(ORCID = "0000-0003-1571-8528"))
    )
License: MIT + file LICENSE
Copyright: The package authors, except the Rust crates vendored in
        src/rust/vendor.tar.xz; see file inst/COPYRIGHTS for their
        authors and licences.
Encoding: UTF-8
LazyData: true
Depends: R (>= 4.2)
Imports: data.table, mvtnorm, stats, utils, rlang
Suggests: SNPRelate, gdsfmt, jsonlite, knitr, pkgload, rmarkdown,
        stringi, testthat (>= 3.0.0), withr
Roxygen: list(markdown = TRUE)
VignetteBuilder: knitr
URL: https://github.com/samuelbfernandes/simplePHENOTYPES
BugReports: https://github.com/samuelbfernandes/simplePHENOTYPES/issues
NeedsCompilation: yes
Config/rextendr/version: 0.5.0
Config/testthat/edition: 3
SystemRequirements: Cargo (Rust's package manager), rustc >= 1.71.0, xz
Config/roxygen2/version: 8.1.0
Config/pak/sysreqs: xz-utils libclang-dev
Repository: https://samuelbfernandes.r-universe.dev
Date/Publication: 2026-10-09 06:30:42 UTC
RemoteUrl: https://github.com/samuelbfernandes/simplephenotypes
RemoteRef: HEAD
RemoteSha: 3c000630a5e566640b5eadfd429d0fcbfd5349b9
Packaged: 2026-10-09 09:30:07 UTC; root
Author: Samuel Fernandes [aut, cre] (ORCID:
    <https://orcid.org/0000-0001-8269-535X>),
  Alexander Lipka [aut] (ORCID: <https://orcid.org/0000-0003-1571-8528>)
Maintainer: Samuel Fernandes <fernandessb101@gmail.com>