Files in SNPRelate

Parallel Computing Toolset for Relatedness and Principal Component Analysis of SNP Data

README.md

NEWS

NAMESPACE

DESCRIPTION

build/vignette.rds

src/ConvToGDS.cpp

src/genEIGMIX.cpp

src/genSlideWin.cpp

src/genLD.cpp

src/Makevars.win

src/dGenGWAS.h

src/dVect.h

src/SNPRelate.cpp

src/genPCA.h

src/R_SNPRelate.c

src/Makevars

src/dVect.cpp

src/genBeta.cpp

src/ThreadPool.cpp

src/genPCA.cpp

src/genKING.cpp

src/genIBD.cpp

src/genIBS.cpp

src/genHWE.cpp

src/genFst.cpp

src/ThreadPool.h

src/dGenGWAS.cpp

data/hapmap_geno.RData

R/Internal.R R/IBS.R R/IBD.R R/Conversion.R R/Conversion2.R R/LD.R R/PCA.R R/AllUtilities.R

vignettes/flowchart.svg

vignettes/SNPRelate.Rmd man/snpgdsGEN2GDS.Rd man/snpgdsIBDMLE.Rd man/snpgdsEIGMIX.Rd man/snpgdsGDS2Eigen.Rd man/snpgdsIBSNum.Rd man/snpgdsIndivBeta.Rd man/snpgdsCreateGenoSet.Rd man/snpgdsPairIBD.Rd man/snpgdsIndInbCoef.Rd man/hapmap_geno.Rd man/snpgdsVCF2GDS.Rd man/snpgdsAdmixPlot.Rd man/snpgdsMergeGRM.Rd man/snpgdsSelectSNP.Rd man/snpgdsPCA.Rd man/snpgdsSummary.Rd man/snpgdsCombineGeno.Rd man/snpgdsSlidingWindow.Rd man/snpgdsPairIBDMLELogLik.Rd man/snpgdsSNPListIntersect.Rd man/snpgdsPCASampLoading.Rd man/snpgdsPairScore.Rd man/snpgdsBED2GDS.Rd man/snpgdsExampleFileName.Rd man/snpgdsGRM.Rd man/snpgdsLDpruning.Rd man/snpgdsTranspose.Rd man/snpgdsPCASNPLoading.Rd man/snpgdsIBDKING.Rd man/snpgdsIBDMLELogLik.Rd man/snpgdsCutTree.Rd man/snpgdsSNPList.Rd man/SNPGDSFileClass-class.Rd man/snpgdsDiss.Rd man/snpgdsIBDSelection.Rd man/snpgdsHCluster.Rd man/snpgdsSNPListClass.Rd man/snpgdsErrMsg.Rd man/snpgdsGDS2PED.Rd man/snpgdsSampMissRate.Rd man/snpgdsPED2GDS.Rd man/snpgdsIndInb.Rd man/snpgdsLDpair.Rd man/snpgdsIBS.Rd man/SNPRelate-package.Rd man/snpgdsGetGeno.Rd man/snpgdsVCF2GDS_R.Rd man/snpgdsPCACorr.Rd man/snpgdsSNPRateFreq.Rd man/snpgdsIBDMoM.Rd man/snpgdsGDS2BED.Rd man/snpgdsOption.Rd man/snpgdsCreateGeno.Rd man/snpgdsClose.Rd man/snpgdsApartSelection.Rd man/snpgdsFst.Rd man/snpgdsHWE.Rd man/snpgdsAdmixProp.Rd man/snpgdsOpen.Rd man/snpgdsLDMat.Rd man/snpgdsAlleleSwitch.Rd man/snpgdsDrawTree.Rd tests/runTests.R

inst/CITATION

inst/doc/SNPRelate.R inst/doc/SNPRelate.Rmd

inst/doc/SNPRelate.html

inst/extdata/plinkhapmap.fam.gz

inst/extdata/sequence.vcf

inst/extdata/plinkhapmap.bim.gz

inst/extdata/hapmap_geno.gds

inst/extdata/plinkhapmap.bed.gz

inst/unitTests/test_Func.R inst/unitTests/test_GRM.R inst/unitTests/test_examples.R inst/unitTests/test_Transpose.R inst/unitTests/test_rel.R inst/unitTests/test_LD.R

inst/unitTests/valid/Validate.Beta.RData

inst/unitTests/valid/Validate.IBS.RData

inst/unitTests/valid/Validate.MoM.RData

inst/unitTests/valid/Validate.EIGMIX.RData

inst/unitTests/valid/Validate.PCA.RData

inst/unitTests/valid/Validate.KING.RData

SNPRelate documentation built on Nov. 8, 2020, 5:31 p.m.