ggmanh

Visualization Tool for GWAS Result


Bioconductor version: Release (3.19)

Manhattan plot and QQ Plot are commonly used to visualize the end result of Genome Wide Association Study. The "ggmanh" package aims to keep the generation of these plots simple while maintaining customizability. Main functions include manhattan_plot, qqunif, and thinPoints.

Author: John Lee [aut, cre], John Lee [aut] (AbbVie), Xiuwen Zheng [ctb, dtc]

Maintainer: John Lee <swannyy.stat at gmail.com>

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

Installation

To install this package, start R (version "4.4") and enter:


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

BiocManager::install("ggmanh")

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("ggmanh")
Guide to ggmanh Package HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews Genetics, GenomeWideAssociation, Software, Visualization
Version 1.8.0
In Bioconductor since BioC 3.15 (R-4.2) (2.5 years)
License MIT + file LICENSE
Depends methods, ggplot2
Imports gdsfmt, ggrepel, grDevices, RColorBrewer, rlang, scales, SeqArray(>= 1.32.0), stats
System Requirements
URL
See More
Suggests BiocStyle, rmarkdown, knitr, testthat (>= 3.0.0), markdown, GenomicRanges
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me SAIGEgds
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Package Archives

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

Source Package ggmanh_1.8.0.tar.gz
Windows Binary ggmanh_1.8.0.zip (64-bit only)
macOS Binary (x86_64) ggmanh_1.8.0.tgz
macOS Binary (arm64) ggmanh_1.8.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/ggmanh
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ggmanh
Bioc Package Browser https://code.bioconductor.org/browse/ggmanh/
Package Short Url https://bioconductor.org/packages/ggmanh/
Package Downloads Report Download Stats