GWASTools

Tools for Genome Wide Association Studies

Bioconductor version: Release (2.14)

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, Adrienne Stilp

Maintainer: Stephanie M. Gogarten <sdmorris at u.washington.edu>, Adrienne Stilp <amstilp 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 1.10.1
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_1.10.1.tar.gz
Windows Binary GWASTools_1.10.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) GWASTools_1.10.1.tgz
Mac OS X 10.9 (Mavericks)
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