Files in GGtools
software and data for analyses in genetics of gene expression
NEWS
TODO.txt
NAMESPACE
DESCRIPTION
README
build/vignette.rds
data/hg19.si.df.rda
data/lgeu.rda
data/strMultPop.rda
data/b1.rda
data/eset.rda
data/hmm878.rda
data/datalist
data/b2.rda
R/eqtlTests.R
R/snplocsDefault.R
R/gffprocess.R
R/bindmaf.R
R/meta.all.R
R/getFDR.R
R/relocate.R
R/pureSensSoft.R
R/meta.transScores.R
R/cisa.R
R/eqtlEstimates.R
R/modutils.R
R/binqq.R
R/Eqappr.R
R/best.trans.eQTLs.R
R/vcfutils.R
R/AllGenerics.R
R/transutils.R
R/cisEqTools.R
R/topFeats.R
R/seqinfo.R
R/summInfra.R
R/managers.R
R/thinclass.R
R/harvest.R
R/gwSnpTests.R
R/cisConfig.R
R/pifdr.R
R/alleq.R
R/fdr.all.cis.R
R/AllClasses.R
R/meta.R
R/basicappraise.R
R/eqME.R
R/scoredist.R
R/topSnps.R
R/snpsCisToGenes.R
R/scan.R
vignettes/t1.pdf
vignettes/cpne1Brow.pdf
vignettes/ggtvig.bib
vignettes/t1evg.pdf
vignettes/GGtools.Rnw
man/qqhex.Rd
man/sensiCisOutput-class.Rd
man/hmm878.Rd
man/best.cis.eQTLs.Rd
man/getCisMap.Rd
man/EqAppr-class.Rd
man/CisConfig-class.Rd
man/cisAssoc.Rd
man/gffprocess.Rd
man/scoresCis.Rd
man/transeqByCluster.Rd
man/eqtlTestsManager-class.Rd
man/eqtlTests.Rd
man/strMultPop.Rd
man/GGtools-package.Rd
man/sensiCisInput-class.Rd
man/cgff2dt.Rd
man/collectBest.Rd
man/transManager-class.Rd
man/ex.Rd
man/cisRun-class.Rd
man/b1.Rd
man/pifdr.Rd
man/simpleTiling.Rd
man/All.cis.Rd
man/TransConfig-class.Rd
man/appraise.Rd
man/vcf2sm.Rd
man/sampsInVCF.Rd
man/concatCis.Rd
man/transScores.Rd
man/sensanal.Rd
man/eqBox.Rd
man/best.trans.eQTLs.Rd
man/bindmaf.Rd
man/snplocsDefault.Rd
man/eqsens_dt.Rd
man/richNull.Rd
man/ciseqByCluster.Rd
man/transTab.Rd
man/gwSnpTests.Rd
man/eqtlTests.me.Rd
tests/test.meqtlTests.R
tests/eqvgwst.R
tests/cis.R
tests/test.meta.trans.R
tests/testTrans.R
tests/f2.fdr.rda
tests/testCisMap.R
tests/f2.score.rda
inst/CITATION
inst/doc/GGtools.pdf
inst/doc/GGtools.R
inst/doc/GGtools.Rnw
inst/cloud/ciseqByCluster.R
inst/cloud/newtest.R
inst/oldRsrc/externalize.R
inst/oldRsrc/cisFDR.R
inst/oldRsrc/egtset.R
inst/oldRsrc/allS4.R
inst/oldRsrc/regressOut.R
inst/oldRsrc/X2chunk.R
inst/oldRsrc/bestCis.R
inst/oldRsrc/probeloc.R
inst/oldRsrc/eqtlEstimates.R
inst/oldRsrc/cisgetter.R
inst/oldRsrc/scoresInRanges.R
inst/oldRsrc/exome_minp.R
inst/oldRsrc/comb.R
inst/oldRsrc/shiftRight.R
inst/oldRsrc/minp.R
inst/oldRsrc/getTransScores.R
inst/oldRsrc/pcc.R
inst/oldRsrc/snp130locs.R
inst/oldRsrc/newEQTL.R
inst/oldRsrc/bindScores.R
inst/oldRsrc/clipPCs.R
inst/oldRsrc/interleave2cis.R
inst/oldRsrc/multff.R
inst/oldRsrc/machutils.R
inst/oldRsrc/cisSnpTests.R
inst/oldRsrc/zzz.R
inst/oldRsrc/fullsynth.R
inst/oldRsrc/permEx.R
inst/oldRsrc/geneRanges.R
inst/oldRsrc/feqtltests.R
inst/oldRsrc/geneTrack.R
inst/oldRsrc/sumDirectors.R
inst/oldRsrc/gwSnpScreen.R
inst/oldRsrc/filterCode.R
inst/extpacksupp/DESCRIPTION.proto
inst/extpacksupp/zzz.R
inst/vcf/provenance.txt
inst/vcf/c20exch.vcf.gz
inst/vcf/c20exch.vcf.gz.tbi
inst/vcf/CEU.exon.2010_09.genotypes.vcf.gz.tbi
inst/vcf/CEU.exon.2010_09.genotypes.vcf.gz
inst/vcf/valid-4.0.vcf.gz
inst/hapmap/relationships_w_pops_051208.txt
inst/hapmap/smallc20CEU.txt.gz
inst/hapmap/src.rel.txt
inst/scripts/lkme.Rnw
inst/scripts/lkme.pdf
inst/provenance/mouse/notes.txt
inst/provenance/human/notes.txt
inst/provenance/human/getall.sh
inst/provenance/human/doallgzOct17b.R
inst/rdas/ceu_22.rda
inst/rdas/ceu_21.rda
inst/pup/combn238_chr6.pup
inst/oldman/geneIndcol.Rd
inst/oldman/dropMonomorphies.Rd
inst/oldman/mkCisTransDirector.Rd
inst/oldman/manhPlot.Rd
inst/oldman/relocate.Rd
inst/oldman/cisProxScores.Rd
inst/oldman/degnerASE01.Rd
inst/oldman/m20.Rd
inst/oldman/best.cis.eQTLs.Rd
inst/oldman/exome_minp.Rd
inst/oldman/hmceuB36.2021.Rd
inst/oldman/calfig.Rd
inst/oldman/genewiseFDRtab.Rd
inst/oldman/eqtlTestsManager-class.Rd
inst/oldman/eqtlFDRtab-class.Rd
inst/oldman/eqtlTests.Rd
inst/oldman/probeLocations.Rd
inst/oldman/multiCisDirector-class.Rd
inst/oldman/GGtools-package.Rd
inst/oldman/ex6.Rd
inst/oldman/imphm2_1KG_20.Rd
inst/oldman/vcf2sm-methods.Rd
inst/oldman/transManager-class.Rd
inst/oldman/topSnps-methods.Rd
inst/oldman/pcChooser.Rd
inst/oldman/vcf2sm.Rd
inst/oldman/permEx.Rd
inst/oldman/clipPCs.Rd
inst/oldman/transScores.Rd
inst/oldman/hla2set.Rd
inst/oldman/eqtlEstimatesManager-class.Rd
inst/oldman/X2chunk.Rd
inst/oldman/cisProxScores-class.Rd
inst/oldman/geneRanges.Rd
inst/oldman/plot-methods.Rd
inst/oldman/makeCommonSNPs.Rd
inst/oldman/sm2ped.Rd
inst/oldman/transTab.Rd
inst/oldman/gwSnpTests.Rd
inst/oldman/externalize.Rd
inst/oldman/mrefhap2sm.Rd
inst/parts/21.rda
inst/parts/20.rda
