DOI: 10.18129/B9.bioc.snpStats    

This is the development version of snpStats; for the stable release version, see snpStats.

SnpMatrix and XSnpMatrix classes and methods

Bioconductor version: Development (3.7)

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>

Maintainer: David Clayton <dc208 at>

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


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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


biocViews GeneticVariability, Microarray, SNP, Software
Version 1.29.1
In Bioconductor since BioC 2.8 (R-2.13) (7 years)
License GPL-3
Depends R (>= 2.10.0), survival, Matrix, methods
Imports graphics, grDevices, stats, utils, BiocGenerics, zlibbioc
Suggests hexbin
Depends On Me GGBase, GGdata
Imports Me FunciSNP, GeneGeneInteR, GGtools, gQTLstats, gwascat, ldblock, martini, MEAL, RVS, scoreInvHap
Suggests Me crlmm, GWASTools, omicRexposome, omicsPrint, VariantAnnotation
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