DOI: 10.18129/B9.bioc.GWASTools  

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

Tools for Genome Wide Association Studies

Bioconductor version: 3.16

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

Author: Stephanie M. Gogarten, Cathy Laurie, Tushar Bhangale, Matthew P. Conomos, Cecelia Laurie, Michael Lawrence, Caitlin McHugh, Ian Painter, Xiuwen Zheng, Jess Shen, Rohit Swarnkar, Adrienne Stilp, Sarah Nelson, David Levine

Maintainer: Stephanie M. Gogarten <sdmorris at>

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


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


biocViews GeneticVariability, Microarray, QualityControl, SNP, Software
Version 1.44.0
In Bioconductor since BioC 2.9 (R-2.14) (11.5 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
Depends On Me GWASdata, mBPCR
Imports Me GENESIS, gwasurvivr
Suggests Me podkat
Links To Me
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Source Package GWASTools_1.44.0.tar.gz
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