epistasisGA
This is the released version of epistasisGA; for the devel version, see epistasisGA.
An R package to identify multi-snp effects in nuclear family studies using the GADGETS method
Bioconductor version: Release (3.23)
This package runs the GADGETS method to identify epistatic effects in nuclear family studies. It also provides functions for permutation-based inference and graphical visualization of the results.
Author: Michael Nodzenski [aut, cre], Juno Krahn [ctb]
Maintainer: Michael Nodzenski <michael.nodzenski at gmail.com>
citation("epistasisGA")):Michael Nodzenski. epistasisGA: An R package to identify multi-snp effects in nuclear family studies using the GADGETS method. doi:10.18129/B9.bioc.epistasisGA, R package version 1.14.0, https://bioconductor.org/packages/epistasisGA.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("epistasisGA")For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("epistasisGA")| Using the GADGETS method to detect epistatic maternally-mediated effects and maternal-fetal interactions | HTML | R Script |
| Detecting GxGxE interactions with case-parent triads using E-GADGETS | HTML | R Script |
| Use of the GADGETS method to identify multi-SNP effects in nuclear families | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | GeneticVariability, Genetics, SNP, Software |
| Version | 1.14.0 |
| In Bioconductor since | BioC 3.16 (R-4.2) (4 years) |
| License | GPL-3 |
| Depends | R (>= 4.2) |
| Imports | BiocParallel, data.table, matrixStats, stats, survival, igraph, batchtools, qgraph, grDevices, parallel, ggplot2, grid, bigmemory, graphics, utils |
| System Requirements | |
| URL | https://github.com/mnodzenski/epistasisGA |
| Bug Reports | https://github.com/mnodzenski/epistasisGA/issues |
See More
| Suggests | BiocStyle, knitr, rmarkdown, magrittr, kableExtra, testthat (>= 3.0.0) |
| Linking To | Rcpp, RcppArmadillo, BH, bigmemory |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | epistasisGA_1.14.0.tar.gz |
| Windows Binary (x86_64) | epistasisGA_1.14.0.zip |
| macOS Binary (big-sur-x86_64) | epistasisGA_1.14.0.tgz |
| macOS Binary (sonoma-arm64) | epistasisGA_1.14.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/epistasisGA |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/epistasisGA |
| Package Short Url | https://bioconductor.org/packages/epistasisGA/ |
| Package Downloads Report | Download Stats |