GPA

DOI: 10.18129/B9.bioc.GPA    

GPA (Genetic analysis incorporating Pleiotropy and Annotation)

Bioconductor version: Release (3.14)

This package provides functions for fitting GPA, a statistical framework to prioritize GWAS results by integrating pleiotropy information and annotation data. In addition, it also includes ShinyGPA, an interactive visualization toolkit to investigate pleiotropic architecture.

Author: Dongjun Chung, Emma Kortemeier, Carter Allen

Maintainer: Dongjun Chung <dongjun.chung at gmail.com>

Installation

To install this package, start R (version "4.1") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("GPA")

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("GPA")

 

PDF	R Script	GPA
PDF		Reference Manual
Text		NEWS

Details

biocViews	Classification, Clustering, DifferentialExpression, GeneExpression, Genetics, GenomeWideAssociation, MultipleComparison, Preprocessing, SNP, Software, StatisticalMethod
Version	1.6.0
In Bioconductor since	BioC 3.11 (R-4.0) (2 years)
License	GPL (>= 2)
Depends	R (>= 4.0.0), methods, graphics, Rcpp
Imports	parallel, ggplot2, ggrepel, plyr, vegan, DT, shiny, shinyBS, stats, utils, grDevices
LinkingTo	Rcpp
Suggests	gpaExample
SystemRequirements	GNU make
Enhances
URL	http://dongjunchung.github.io/GPA/
BugReports	https://github.com/dongjunchung/GPA/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	GPA_1.6.0.tar.gz
Windows Binary	GPA_1.6.0.zip
macOS 10.13 (High Sierra)	GPA_1.6.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/GPA
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/GPA
Package Short Url	https://bioconductor.org/packages/GPA/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.14	Source Archive