gcatest
This package is for version 3.20 of Bioconductor; for the stable, up-to-date release version, see gcatest.
Genotype Conditional Association TEST
Bioconductor version: 3.20
GCAT is an association test for genome wide association studies that controls for population structure under a general class of trait models. This test conditions on the trait, which makes it immune to confounding by unmodeled environmental factors. Population structure is modeled via logistic factors, which are estimated using the `lfa` package.
Author: Wei Hao [aut], Minsun Song [aut], Alejandro Ochoa [aut, cre]
, John D. Storey [aut]
Maintainer: Alejandro Ochoa <alejandro.ochoa at duke.edu>
citation("gcatest")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("gcatest")
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("gcatest")| gcat Package | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DimensionReduction, GenomeWideAssociation, PrincipalComponent, SNP, Software |
| Version | 2.6.0 |
| In Bioconductor since | BioC 3.2 (R-3.2) (9.5 years) |
| License | GPL (>= 3) |
| Depends | R (>= 4.0) |
| Imports | methods, lfa |
| System Requirements | |
| URL | https://github.com/StoreyLab/gcatest |
| Bug Reports | https://github.com/StoreyLab/gcatest/issues |
See More
| Suggests | knitr, ggplot2, testthat, BEDMatrix, genio |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | jackstraw |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | gcatest_2.6.0.tar.gz |
| Windows Binary (x86_64) | gcatest_2.6.0.zip |
| macOS Binary (x86_64) | gcatest_2.6.0.tgz |
| macOS Binary (arm64) | gcatest_2.6.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/gcatest |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/gcatest |
| Bioc Package Browser | https://code.bioconductor.org/browse/gcatest/ |
| Package Short Url | https://bioconductor.org/packages/gcatest/ |
| Package Downloads Report | Download Stats |