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Interaction between a genetic variant (e.g., a single nucleotide polymorphism) and an environmental variable (e.g., physical activity) can have a shared effect on multiple phenotypes (e.g., blood lipids). We implement a two-step method to test for an overall interaction effect on multiple phenotypes. In first step, the method tests for an overall marginal genetic association between the genetic variant and the multivariate phenotype. The genetic variants which show an evidence of marginal overall genetic effect in the first step are prioritized while testing for an overall gene-environment interaction effect in the second step. Methodology is available from: A Majumdar, KS Burch, S Sankararaman, B Pasaniuc, WJ Gauderman, JS Witte (2020) <doi:10.1101/2020.07.06.190256>.
| Version: | 1.0.0 |
| Depends: | R (≥ 3.5.0) |
| Imports: | car, purrr, stats, utils |
| Suggests: | knitr, rmarkdown, testthat |
| Published: | 2020-10-23 |
| DOI: | 10.32614/CRAN.package.MPGE |
| Author: | Arunabha Majumdar [aut, cre], Tanushree Haldar [aut] |
| Maintainer: | Arunabha Majumdar <statgen.arunabha at gmail.com> |
| BugReports: | https://github.com/ArunabhaCodes/MPGE/issues |
| License: | GPL-3 |
| URL: | https://github.com/ArunabhaCodes/MPGE |
| NeedsCompilation: | no |
| Materials: | README NEWS |
| CRAN checks: | MPGE results |
| Reference manual: | MPGE.pdf |
| Vignettes: |
MPGE package: A two-step approach to testing overall effect of gene-environment interaction for multiple phenotypes |
| Package source: | MPGE_1.0.0.tar.gz |
| Windows binaries: | r-devel: MPGE_1.0.0.zip, r-release: MPGE_1.0.0.zip, r-oldrel: MPGE_1.0.0.zip |
| macOS binaries: | r-release (arm64): MPGE_1.0.0.tgz, r-oldrel (arm64): MPGE_1.0.0.tgz, r-release (x86_64): MPGE_1.0.0.tgz, r-oldrel (x86_64): MPGE_1.0.0.tgz |
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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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