DOI: 10.18129/B9.bioc.GWASTools  

This is the development version of GWASTools; for the stable release version, see GWASTools.

Tools for Genome Wide Association Studies

Bioconductor version: Development (3.18)

Classes for storing very large GWAS data sets and annotation, and functions for GWAS data cleaning and analysis.

Author: Stephanie M. Gogarten [aut], Cathy Laurie [aut], Tushar Bhangale [aut], Matthew P. Conomos [aut], Cecelia Laurie [aut], Michael Lawrence [aut], Caitlin McHugh [aut], Ian Painter [aut], Xiuwen Zheng [aut], Jess Shen [aut], Rohit Swarnkar [aut], Adrienne Stilp [aut], Sarah Nelson [aut], David Levine [aut], Sonali Kumari [ctb] (Converted vignettes from Sweave to RMarkdown / HTML.), Stephanie M. Gogarten [cre]

Maintainer: Stephanie M. Gogarten <sdmorris at>

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


To install this package, start R (version "4.3") and enter:

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

# The following initializes usage of Bioc devel


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 R Script Data formats in GWASTools
PDF R Script GWAS Data Cleaning
HTML R Script Preparing Affymetrix Data
PDF   Reference Manual
Text   NEWS


biocViews GeneticVariability, Microarray, QualityControl, SNP, Software
Version 1.47.1
In Bioconductor since BioC 2.9 (R-2.14) (12 years)
License Artistic-2.0
Depends Biobase
Imports graphics, stats, utils, methods, gdsfmt, DBI, RSQLite, GWASExactHW, DNAcopy, survival, sandwich, lmtest, logistf, quantsmooth, data.table
Suggests ncdf4, GWASdata, BiocGenerics, RUnit, Biostrings, GenomicRanges, IRanges, SNPRelate, snpStats, S4Vectors, VariantAnnotation, parallel, BiocStyle, knitr
Depends On Me GWASdata, mBPCR
Imports Me GENESIS, gwasurvivr
Suggests Me podkat
Links To Me
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Source Package GWASTools_1.47.1.tar.gz
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macOS Binary (x86_64) GWASTools_1.47.1.tgz
macOS Binary (arm64) GWASTools_1.47.1.tgz
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