To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("snpStats")

In most cases, you don't need to download the package archive at all.

snpStats

DOI: 10.18129/B9.bioc.snpStats

SnpMatrix and XSnpMatrix classes and methods

Bioconductor version: Release (3.5)

Classes and statistical methods for large SNP association studies. This extends the earlier snpMatrix package, allowing for uncertainty in genotypes.

Author: David Clayton <dc208 at cam.ac.uk>

Maintainer: David Clayton <dc208 at cam.ac.uk>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("snpStats")

Documentation

To view documentation for the version of this package installed in your system, start R and enter: 

browseVignettes("snpStats")
PDF R Script Data input
PDF R Script Fst
PDF R Script Imputation and meta-analysis
PDF R Script LD statistics
PDF R Script Principal components analysis
PDF snpMatrix-differences
PDF R Script snpStats introduction
PDF R Script TDT tests
PDF Reference Manual

Details

biocViews GeneticVariability, Microarray, SNP, Software
Version 1.26.0
In Bioconductor since BioC 2.8 (R-2.13) (6.5 years)
License GPL-3
Depends R (>= 2.10.0), survival, Matrix, methods
Imports graphics, grDevices, stats, utils, BiocGenerics, zlibbioc
LinkingTo
Suggests hexbin
SystemRequirements
Enhances
URL
Depends On Me GGBase, GGdata
Imports Me FunciSNP, GeneGeneInteR, GGtools, gQTLstats, gwascat, ldblock, MEAL
Suggests Me crlmm, GWASTools, VariantAnnotation
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package snpStats_1.26.0.tar.gz
Windows Binary snpStats_1.26.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) snpStats_1.26.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/snpStats
Package Short Url http://bioconductor.org/packages/snpStats/
Package Downloads Report Download Stats

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