MPGE
A Two-Step Approach to Testing Overall Effect of Gene-Environment Interaction for Multiple Phenotypes
Description
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, T Haldar, S Sankararaman, B Pasaniuc, WJ Gauderman, JS Witte (2020) <doi:10.1093/bioinformatics/btaa1083>.
Downloads
591
Last 30 days
6774th
1.1K
Last 90 days
3K
Last year
Trend: +132.7% (30d vs prior 30d)
CRAN Check Status
Show all 14 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | OK |
| r-devel-linux-x86_64-debian-gcc | OK |
| r-devel-linux-x86_64-fedora-clang | OK |
| r-devel-linux-x86_64-fedora-gcc | OK |
| r-devel-macos-arm64 | OK |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | OK |
| r-oldrel-windows-x86_64 | OK |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check History
OK 14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 18, 2026
NOTE 0 OK · 14 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
Rd files
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_ checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_ checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
Rd files
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_ checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_ checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
Rd files
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_ checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_ checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
Rd files
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_ checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_ checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
Rd files
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_ checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_ checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
Rd files
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_ checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_ checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
Rd files
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_ checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_ checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
Rd files
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_ checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_ checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
Rd files
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_ checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_ checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
Rd files
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_ checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_ checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
Rd files
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_ checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_ checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
Rd files
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_ checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_ checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
Rd files
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_ checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_ checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
Rd files
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_ checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_ checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_