Package: pleiotest 1.0.0
Fernando Aguate
pleiotest: Fast Sequential Pleiotropy Test
It performs a fast multi-trait genome-wide association analysis based on seemingly unrelated regressions. It tests for pleiotropic effects based on a series of Intersection-Union Wald tests. The package can handle large and unbalanced data and plot results.
Authors:
pleiotest_1.0.0.tar.gz
pleiotest_1.0.0.tar.gz(r-4.5-noble)pleiotest_1.0.0.tar.gz(r-4.4-noble)
pleiotest_1.0.0.tgz(r-4.4-emscripten)pleiotest_1.0.0.tgz(r-4.3-emscripten)
pleiotest.pdf |pleiotest.html✨
pleiotest/json (API)
| # Install 'pleiotest' in R: |
| install.packages('pleiotest', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/feraguate/pleiotest/issues
Last updated 4 years agofrom:9e34b17e02. Checks:OK: 1 NOTE: 1. Indexed: no.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 17 2024 |
| R-4.5-linux-x86_64 | NOTE | Oct 17 2024 |
Exports:identify_subsetsmanhattan_plotmt_gwaspleio_ideogrampleio_plotpleio_simulatepleio_testpleioRxrsx_xrsy
Dependencies:RColorBrewerRcppRcppArmadillo
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Internal function to identify sub-sets of data and return a list with IDs. | identify_subsets |
| Single Trait Manhattan plot | manhattan_plot |
| Multi-trait Genome wide association model. | mt_gwas |
| Plot ideogram from pleio_test results | pleio_ideogram |
| Pleiotropic manhattan plot | pleio_plot |
| Create simulations | pleio_simulate |
| Sequential Wald test for pleiotropy | pleio_test |
| Fit a multi-trait model to test for genetic pleiotropy | pleioR |
| Calculate XRsX and XRsY | xrsx_xrsy |
