GWASTools

Tools for Genome Wide Association Studies

Bioconductor version: 3.23 · Package version: 1.58.0

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

Installation

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

BiocManager::install("GWASTools")

Maintainer	Stephanie M. Gogarten <sdmorris@uw.edu>
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]
License	Artistic-2.0
URL	https://github.com/smgogarten/GWASTools
Downloads rank	1240
Source branch	RELEASE_3_23
biocViews	GeneticVariability, Microarray, QualityControl, SNP, Software

Follow the installation instructions to use this package in your R session.

Dependencies

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

Reverse dependencies

Depends On Me (3): GWASdata, mBPCR, snplinkage

Imports Me (2): GENESIS, gwasurvivr

Suggests Me (1): podkat