Package: GGtools
Title: software and data for genetics of gene expression (c) 2006 VJ Carey
Version: 4.2.0
Author: Vince Carey <stvjc@channing.harvard.edu>
Description: dealing with hapmap SNP reports, GWAS, etc.
Depends: R (>= 2.13.0), methods, GGBase (>= 3.15.4),
	snpStats(>= 1.5.2), GenomicRanges
Imports: AnnotationDbi, IRanges (>= 1.1.6), rtracklayer, bit,
	Rsamtools, ff, BiocGenerics, Matrix, Biobase, limma
Suggests: annotate, rtracklayer (>= 1.15.4), 
	org.Hs.eg.db, GenomicRanges (>= 1.7.6), 
	illuminaHumanv1.db, org.Hs.eg.db, SNPlocs.Hsapiens.dbSNP.20100427,
	rpart, rtracklayer, ceu1kg, SNPlocs.Hsapiens.dbSNP.20090506,
	chopsticks, GGdata, genefilter
Enhances: parallel, annaffy, nlme
LazyData: no
biocViews: SNP, GeneticVariability, Genetics, Bioinformatics
Maintainer: Vince Carey <stvjc@channing.harvard.edu>
License: Artistic-2.0
Collate: allS4.R X2chunk.R cisSnpTests.R geneTrack.R multff.R topFeats.R
	filterCode.R gwSnpScreen.R newEQTL.R topSnps.R
	bestCis.R geneRanges.R minp.R snp130locs.R trackSet.R
	permEx.R vcfutils.R shiftRight.R exome_minp.R 
	scoresInRanges.R fullsynth.R clipPCs.R pcc.R interleave2cis.R
	transTops.R feqtltests.R externalize.R egtset.R relocate.R
	sumDirectors.R getTransScores.R transutils.R machutils.R
	eqtlEstimates.R cisFDR.R probeloc.R bindScores.R comb.R 
	cisgetter.R regressOut.R zzz.R
