Files in transbioZI/Gimpute
Gimpute: An efficient genetic data processing and imputation pipeline
DESCRIPTION
Gimpute.Rproj
NAMESPACE
R/align2reference.R
R/extend2genipe.R
R/genotypeInfoUpdate.R
R/genotypeQC.R
R/managePlinkData.R
R/phasingImpute.R
R/phasingImpute4.R
R/postImputation.R
README.md
inst/NEWS
inst/doc/Gimpute-manual.pdf
inst/doc/GimputeTutorial.html
inst/extdata/1_01_metaData.txt
inst/extdata/QCdata.bed
inst/extdata/QCdata.bim
inst/extdata/QCdata.fam
inst/extdata/alignedData.bed
inst/extdata/alignedData.bim
inst/extdata/alignedData.fam
inst/extdata/controlData.bed
inst/extdata/controlData.bim
inst/extdata/controlData.fam
inst/extdata/coriellAffyChip.txt
inst/extdata/dataChr21.bed
inst/extdata/dataChr21.bim
inst/extdata/dataChr21.fam
inst/extdata/dataWithFamChr21.bed
inst/extdata/dataWithFamChr21.bim
inst/extdata/dataWithFamChr21.fam
inst/extdata/excludedProbeIDs.txt
inst/extdata/excludedSampIDs.txt
inst/extdata/excludedSampIDsV1.txt
inst/extdata/genoUpdatedData.bed
inst/extdata/genoUpdatedData.bim
inst/extdata/genoUpdatedData.fam
inst/extdata/gwas_data_chr23.bim
man/checkAlign2ref.Rd
man/chrWiseSplit.Rd
man/chunk4eachChr.Rd
man/computeInfoByQctool.Rd
man/dot-convertImpute2ByGtool.Rd
man/dot-filterImputeData.Rd
man/dot-filterImputeData2.Rd
man/dot-getInfoScoreImpute2.Rd
man/dot-imputedByImpute2.Rd
man/dot-imputedByImpute4.Rd
man/dot-mergePlinkData.Rd
man/dot-prePhasingByShapeit.Rd
man/dot-prepareLegend2bim.Rd
man/dot-snpSharedPos.Rd
man/extractByGenipe.Rd
man/genoQC.Rd
man/getGroupLabel.Rd
man/imputedByGenipe.Rd
man/mergeByGenipe.Rd
man/phaseImpute.Rd
man/plotPCA4plink.Rd
man/postImpQC.Rd
man/prepareAnnoFile4affy.Rd
man/reductExpand.Rd
man/removeNoGroupId.Rd
man/removeOutlierByPCs.Rd
man/removeSampID.Rd
man/removedDoubleProbes.Rd
man/removedExclProbe.Rd
man/removedInstFhet.Rd
man/removedInstMiss.Rd
man/removedMaleHetX.Rd
man/removedMendelErr.Rd
man/removedMonoSnp.Rd
man/removedParentIdsMiss.Rd
man/removedSnpFemaleChrXhweControl.Rd
man/removedSnpFemaleChrXmiss.Rd
man/removedSnpHWEauto.Rd
man/removedSnpHetX.Rd
man/removedSnpMiss.Rd
man/removedSnpMissDiff.Rd
man/removedSnpMissPostImp.Rd
man/removedUnmapProbes.Rd
man/removedWrongAnceInst.Rd
man/removedYMtSnp.Rd
man/renamePlinkBFile.Rd
man/setHeteroHaploMissing.Rd
man/splitXchr.Rd
man/updateGenoInfo.Rd
man/updateGroupIdAndSex.Rd
man/updatedSnpInfo.Rd
tests/runTests.R
vignettes/Gimpute.png
vignettes/GimputeTutorial.Rmd
vignettes/GimputeTutorial.html
