GGtools

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

Bioconductor version: 2.8

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")

Documentation

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

Details

biocViews SNP, GeneticVariability, Genetics, Bioinformatics
Depends R (>= 2.7.0), methods, Biobase(>= 1.11.26), GGBase(>= 3.7.5), snpStats(>= 1.1.10), annotate, IRanges, rtracklayer, org.Hs.eg.db, GenomicRanges(>= 1.3.38), ff
Imports AnnotationDbi, IRanges(>= 1.1.6), annaffy, GSEABase, rtracklayer
Suggests illuminaHumanv1.db, org.Hs.eg.db, SNPlocs.Hsapiens.dbSNP.20100427, rpart, rtracklayer, GSEABase, ceu1kg, ceuhm3, SNPlocs.Hsapiens.dbSNP.20090506, genefilter, hmyriB36
System Requirements
License Artistic-2.0
URL
Depends On Me ceu1kg, cheung2010, encoDnaseI
Imports Me ceuhm3
Suggests Me hmyriB36, ind1KG
Version 3.10.2
Since Bioconductor 1.9 (R-2.4)

Package Downloads

Package Source GGtools_3.10.2.tar.gz
Windows Binary GGtools_3.10.2.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary GGtools_3.10.2.tgz
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