GGtools

software and data for genetics of gene expression (c) 2006 VJ Carey

Bioconductor version: 2.9

dealing with hapmap SNP reports, GWAS, etc.

Author: Vince Carey <stvjc at channing.harvard.edu>

Maintainer: Vince Carey <stvjc at channing.harvard.edu>

To install this package, start R and enter:

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

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

    citation("GGtools")

PDF	R Script	external -- decomposable smlSet representation
PDF	R Script	GGtools Bioinfo Application note support
PDF	R Script	GGtools: exploring genetics of gene expression
PDF		lab2010.pdf
PDF		Reference Manual
Text		README
Text		NEWS

biocViews	SNP, GeneticVariability, Genetics, Bioinformatics
Depends	R (>= 2.13.0), methods, Biobase(>= 1.11.26), GGBase(>= 3.13.5), snpStats(>= 1.1.10), annotate, IRanges, rtracklayer, org.Hs.eg.db, GenomicRanges(>= 1.3.38), ff
Imports	AnnotationDbi, IRanges(>= 1.1.6), annaffy, rtracklayer, bit, Rsamtools
Suggests	illuminaHumanv1.db, org.Hs.eg.db, SNPlocs.Hsapiens.dbSNP.20100427, rpart, rtracklayer, ceu1kg, SNPlocs.Hsapiens.dbSNP.20090506, chopsticks, GGdata, genefilter
System Requirements
License	Artistic-2.0
URL
Depends On Me	ceu1kg, cheung2010, encoDnaseI, ggtut
Imports Me	ceuhm3
Suggests Me	hmyriB36, ind1KG
Version	4.0.0
Since	Bioconductor 1.9 (R-2.4)

Common Bioconductor workflows include:

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