GWASTools

Tools for Genome Wide Association Studies

Bioconductor version: Release (2.12)

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, Caitlin McHugh, Ian Painter, Xiuwen Zheng, Jess Shen, Rohit Swarnkar

Maintainer: Stephanie M. Gogarten <sdmorris at u.washington.edu>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("GWASTools")

To cite this package in a publication, start R and enter:

    citation("GWASTools")

Documentation

PDF	R Script	Converting VCF data for use in GWASTools
PDF	R Script	Data formats in GWASTools
PDF	R Script	GWAS Data Cleaning
PDF	R Script	Preparing Affymetrix Data
PDF		Reference Manual
Text		NEWS

Details

biocViews	GeneticVariability, Microarray, QualityControl, SNP, Software
Version	1.6.5
In Bioconductor since	BioC 2.9 (R-2.14)
License	Artistic-2.0
Depends	Biobase, ncdf, gdsfmt, sandwich
Imports	methods, DBI, RSQLite, GWASExactHW, DNAcopy, survival, lmtest, quantsmooth
Suggests	GWASdata, BiocGenerics, RUnit, SNPRelate, snpStats, VariantAnnotation
System Requirements
URL
Depends On Me	GWASdata
Imports Me
Suggests Me

Package Downloads

Package Source	GWASTools_1.6.5.tar.gz
Windows Binary	GWASTools_1.6.5.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	GWASTools_1.6.5.tgz
Package Downloads Report	Download Stats

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