DOI: 10.18129/B9.bioc.GGPA  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see GGPA.

graph-GPA: A graphical model for prioritizing GWAS results and investigating pleiotropic architecture

Bioconductor version: 3.16

Genome-wide association studies (GWAS) is a widely used tool for identification of genetic variants associated with phenotypes and diseases, though complex diseases featuring many genetic variants with small effects present difficulties for traditional these studies. By leveraging pleiotropy, the statistical power of a single GWAS can be increased. This package provides functions for fitting graph-GPA, a statistical framework to prioritize GWAS results by integrating pleiotropy. 'GGPA' package provides user-friendly interface to fit graph-GPA models, implement association mapping, and generate a phenotype graph.

Author: Dongjun Chung, Hang J. Kim, Carter Allen

Maintainer: Dongjun Chung <dongjun.chung at>

Citation (from within R, enter citation("GGPA")):


To install this package, start R (version "4.2") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



PDF   Reference Manual
Text   NEWS


biocViews Classification, Clustering, DifferentialExpression, GeneExpression, Genetics, GenomeWideAssociation, MultipleComparison, Preprocessing, SNP, Software, StatisticalMethod
Version 1.10.2
In Bioconductor since BioC 3.11 (R-4.0) (3 years)
License GPL (>= 2)
Depends R (>= 4.0.0), stats, methods, graphics, GGally, network, sna, scales, matrixStats
Imports Rcpp (>= 0.11.3)
LinkingTo Rcpp, RcppArmadillo
Suggests BiocStyle
SystemRequirements GNU make
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 GGPA_1.10.2.tar.gz
Windows Binary
macOS Binary (x86_64) GGPA_1.10.2.tgz
macOS Binary (arm64) GGPA_1.10.2.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: