gQTLstats: gQTLstats: computationally efficient analysis for eQTL and allied studies

computationally efficient analysis of eQTL, mQTL, dsQTL, etc.

AuthorVJ Carey <stvjc@channing.harvard.edu>
Date of publicationNone
MaintainerVJ Carey <stvjc@channing.harvard.edu>
LicenseArtistic-2.0
Version1.6.0

View on Bioconductor

Functions

AllAssoc Man page
cisAssoc Man page
cisCount Man page
cisEsts Man page
clipPCs Man page
clipPCs,RangedSummarizedExperiment,numeric,logical-method Man page
clipPCs,RangedSummarizedExperiment,numeric,missing-method Man page
clipPCs,SummarizedExperiment,numeric,logical-method Man page
clipPCs,SummarizedExperiment,numeric,missing-method Man page
describe Man page
describe,TransStore-method Man page
directPlot Man page
enumerateByFDR Man page
eqBox2 Man page
eqDesc2 Man page
FDRsupp-class Man page
filteredDFwPerm Man page
filtFDR Man page
getFDRfunc Man page
getFDRfunc,FDRsupp-method Man page
getTab Man page
getTab,FDRsupp-method Man page
gQTLs Man page
gQTLstats Man page
gQTLstats-package Man page
gQTLswarm Man page
hmm878 Man page
manhWngr Man page
mixedVCFtoSnpMatrix Man page
pifdr Man page
plot Man page
plot.senstab Man page
prep.cisAssocNB Man page
qqStore Man page
queryVCF Man page
rawFDR Man page
regressOut Man page
sensByProbe Man page
senstab Man page
setFDRfunc Man page
storeToFDR Man page
storeToFDRByProbe Man page
storeToFf Man page
storeToHist Man page
storeToMaxAssocBySNP Man page
storeToQuantiles Man page
table_sensobj_thresh Man page
transAssoc Man page
TransChunk Man page
TransChunk-class Man page
TransStore Man page
TransStore-class Man page
transTable Man page
txsPlot Man page

Files

gQTLstats/DESCRIPTION
gQTLstats/NAMESPACE
gQTLstats/R
gQTLstats/R/allS4.R gQTLstats/R/buf.R gQTLstats/R/bufferedTrans.R gQTLstats/R/cisAssocPlus.R gQTLstats/R/cisCount.R gQTLstats/R/cisEsts.R gQTLstats/R/filters.R gQTLstats/R/gmod2.R gQTLstats/R/manhW878.R gQTLstats/R/mixedVcfToSM.R gQTLstats/R/pifdr.R gQTLstats/R/plot.sensobj.thresh.R gQTLstats/R/qqStore.R gQTLstats/R/queryVCF.R gQTLstats/R/senstab.R gQTLstats/R/storeStats.R gQTLstats/R/transChunk.R
gQTLstats/build
gQTLstats/build/partial.rdb
gQTLstats/build/vignette.rds
gQTLstats/data
gQTLstats/data/bigfiltFDR.rda
gQTLstats/data/bigrawFDR.rda
gQTLstats/data/datalist
gQTLstats/data/filtFDR.rda
gQTLstats/data/hmm878.rda
gQTLstats/data/rawFDR.rda
gQTLstats/data/sensByProbe.rda
gQTLstats/data/sigInlit.rda
gQTLstats/inst
gQTLstats/inst/doc
gQTLstats/inst/doc/gQTLstats.R
gQTLstats/inst/doc/gQTLstats.Rmd
gQTLstats/inst/doc/gQTLstats.html
gQTLstats/inst/scripts
gQTLstats/inst/scripts/README.txt
gQTLstats/inst/scripts/geuvFull
gQTLstats/inst/scripts/geuvFull/gsvs.rda
gQTLstats/inst/scripts/geuvFull/runit.R
gQTLstats/inst/scripts/geuvFull/runit3.R
gQTLstats/inst/scripts/geuvFull/tg_250k.rda
gQTLstats/inst/scripts/sensByProbe
gQTLstats/inst/scripts/sensByProbe/sensanal2.R
gQTLstats/inst/scripts/sensBySNP
gQTLstats/inst/scripts/sensBySNP/bysnpBat.R
gQTLstats/inst/unitTests
gQTLstats/inst/unitTests/test_gQTLstats.R
gQTLstats/inst/vcf
gQTLstats/inst/vcf/GLdemo.vcf
gQTLstats/inst/vcf/README.txt
gQTLstats/inst/vcf/c20exch.vcf.gz
gQTLstats/inst/vcf/c20exch.vcf.gz.tbi
gQTLstats/inst/vcf/lit20.vcf.gz
gQTLstats/inst/vcf/lit20.vcf.gz.tbi
gQTLstats/inst/vcf/litv.vcf.gz
gQTLstats/inst/vcf/litv.vcf.gz.tbi
gQTLstats/inst/vcf/mixedVcfToSM.R
gQTLstats/inst/vcf/polytype.vcf
gQTLstats/inst/vcf/polytypeSNV.vcf
gQTLstats/inst/vcf/small_1.vcf.gz
gQTLstats/inst/vcf/small_1.vcf.gz.tbi
gQTLstats/man
gQTLstats/man/FDRsupp-class.Rd gQTLstats/man/TransStore-class.Rd gQTLstats/man/TransStore.Rd gQTLstats/man/cisAssoc.Rd gQTLstats/man/clipPCs.Rd gQTLstats/man/directPlot.Rd gQTLstats/man/enumerateByFDR.Rd gQTLstats/man/eqBox2.Rd gQTLstats/man/filtFDR.Rd gQTLstats/man/gQTLs.Rd gQTLstats/man/gQTLstats-package.Rd gQTLstats/man/hmm878.Rd gQTLstats/man/manhWngr.Rd gQTLstats/man/mixedVCFtoSnpMatrix.Rd gQTLstats/man/pifdr.Rd gQTLstats/man/qqStore.Rd gQTLstats/man/queryVCF.Rd gQTLstats/man/senstab.Rd gQTLstats/man/setFDRfunc.Rd gQTLstats/man/storeToStats.Rd gQTLstats/man/transAssoc.Rd gQTLstats/man/txsPlot.Rd
gQTLstats/tests
gQTLstats/tests/test-all.R
gQTLstats/vignettes
gQTLstats/vignettes/gQTLstats.Rmd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.