Files in DEploid
Deconvolute Mixed Genomes with Unknown Proportions

MD5

README.md

NAMESPACE

DESCRIPTION

R/RcppExports.R R/dEploid.R R/DEploidR.R R/dEploidPlotly.R R/DEploid.utils.R

src/Makevars.win

src/Makevars

src/RcppExports.cpp

src/r_random_generator.h

src/init.c

src/dEploidr.cpp

src/test_exports.cpp

src/DEploid/src/panel.cpp

src/DEploid/src/panel.hpp

src/DEploid/src/updateHap.hpp

src/DEploid/src/exceptions.hpp

src/DEploid/src/utility.cpp

src/DEploid/src/chooseK.cpp

src/DEploid/src/logsum.hpp

src/DEploid/src/dEploidIO-operation.cpp

src/DEploid/src/param.hpp

src/DEploid/src/dEploidIO.cpp

src/DEploid/src/dEploidIO.hpp

src/DEploid/src/global.hpp

src/DEploid/src/utility.hpp

src/DEploid/src/log-double.hpp

src/DEploid/src/updateHap.cpp

src/DEploid/src/dEploid.cpp

src/DEploid/src/ibd.hpp

src/DEploid/src/dEploidIO-workflow.cpp

src/DEploid/src/mcmc.hpp

src/DEploid/src/ibd.cpp

src/DEploid/src/chooseK.hpp

src/DEploid/src/mcmc.cpp

src/DEploid/src/dEploid_completion.sh

src/DEploid/src/export/dEploidIOExport.cpp

src/DEploid/src/export/writeMcmcRelated.cpp

src/DEploid/src/export/dEploidIOExportPosteriorProb.cpp

src/DEploid/src/vcf/Makefile.am

src/DEploid/src/vcf/Brewfile

src/DEploid/src/vcf/version

src/DEploid/src/vcf/README.md

src/DEploid/src/vcf/bootstrap

src/DEploid/src/vcf/configure.ac

src/DEploid/src/vcf/CPPLINT.cfg

src/DEploid/src/vcf/COPYING

src/DEploid/src/vcf/main.cpp

src/DEploid/src/vcf/src/variantIndex.hpp

src/DEploid/src/vcf/src/exceptions.hpp

src/DEploid/src/vcf/src/vcfReader.hpp

src/DEploid/src/vcf/src/vcfReader.cpp

src/DEploid/src/vcf/src/txtReader.cpp

src/DEploid/src/vcf/src/vcfReaderDebug.cpp

src/DEploid/src/vcf/src/global.hpp

src/DEploid/src/vcf/src/variantIndex.cpp

src/DEploid/src/vcf/src/txtReader.hpp

src/DEploid/src/vcf/src/gzstream/gzstream.h

src/DEploid/src/vcf/src/gzstream/COPYING.LIB

src/DEploid/src/vcf/src/gzstream/test_gzip.C

src/DEploid/src/vcf/src/gzstream/logo.gif

src/DEploid/src/vcf/src/gzstream/README

src/DEploid/src/vcf/src/gzstream/test_gunzip.C

src/DEploid/src/vcf/src/gzstream/gzstream.cpp

src/DEploid/src/vcf/src/gzstream/index.html

src/DEploid/src/vcf/data/testData/PG0390.C_alt.txt

src/DEploid/src/vcf/data/testData/bad.plaf.txt

src/DEploid/src/vcf/data/testData/txtReaderForTesting.txt.gz

src/DEploid/src/vcf/data/testData/testingPanel.txt

src/DEploid/src/vcf/data/testData/labStrains.test.exclude.txt.gz

src/DEploid/src/vcf/data/testData/bad.plaf_scientific.txt

src/DEploid/src/vcf/data/testData/bad.plaf_scientificE.txt

src/DEploid/src/vcf/data/testData/bad.plaf_badpos.txt

src/DEploid/src/vcf/data/testData/txtReaderForTesting.txt

src/DEploid/src/vcf/data/testData/README.md

src/DEploid/src/vcf/data/testData/txtReaderForTestingAfterExclude.txt

src/DEploid/src/vcf/data/testData/PG0390-C.test.alt

src/DEploid/src/vcf/data/testData/labStrains.test.exclude.txt

src/DEploid/src/vcf/data/testData/txtReaderForTestingToBeExclude.txt

src/DEploid/src/vcf/data/testData/labStrains_samples_PLAF.txt

src/DEploid/src/vcf/data/testData/PG0390-C.test.nopanel.hap

src/DEploid/src/vcf/data/testData/labStrains.test.panel.txt

src/DEploid/src/vcf/data/testData/labStrains.test.PLAF.txt.gz

src/DEploid/src/vcf/data/testData/PG0390-C.test.vcf

src/DEploid/src/vcf/data/testData/PG0390-C.test.vcf.gz

src/DEploid/src/vcf/data/testData/PG0390-C.test.ref

src/DEploid/src/vcf/data/testData/labStrains.test.panel.txt.gz

src/DEploid/src/vcf/data/testData/labStrains.test.PLAF.txt

src/DEploid/src/vcf/data/testData/crappyVcfGz/badVariant.noAD.vcf.gz

src/DEploid/src/vcf/data/testData/crappyVcfGz/badHeaderFieldNames.ref.vcf.gz

src/DEploid/src/vcf/data/testData/crappyVcfGz/badHeaderFieldNames.format.vcf.gz

src/DEploid/src/vcf/data/testData/crappyVcfGz/badHeaderFieldNames.filter.vcf.gz

src/DEploid/src/vcf/data/testData/crappyVcfGz/badHeaderFieldNames.pos.vcf.gz

src/DEploid/src/vcf/data/testData/crappyVcfGz/badHeaderFieldNames.info.vcf.gz

src/DEploid/src/vcf/data/testData/crappyVcfGz/badHeaderFieldNames.alt.vcf.gz

src/DEploid/src/vcf/data/testData/crappyVcfGz/badHeaderFieldNames.qual.vcf.gz

src/DEploid/src/vcf/data/testData/crappyVcfGz/badHeaderFieldNames.chrom2.vcf.gz

src/DEploid/src/vcf/data/testData/crappyVcfGz/badHeaderFieldNames.chrom.vcf.gz

src/DEploid/src/vcf/data/testData/crappyVcfGz/badHeaderFieldNames.id.vcf.gz

src/DEploid/src/vcf/data/testData/crappyVcf/badHeaderFieldNames.info.vcf

src/DEploid/src/vcf/data/testData/crappyVcf/badHeaderFieldNames.ref.vcf

src/DEploid/src/vcf/data/testData/crappyVcf/badHeaderFieldNames.pos.vcf

src/DEploid/src/vcf/data/testData/crappyVcf/badHeaderFieldNames.chrom.vcf

src/DEploid/src/vcf/data/testData/crappyVcf/badVariant.noAD.vcf

src/DEploid/src/vcf/data/testData/crappyVcf/badHeaderFieldNames.chrom2.vcf

src/DEploid/src/vcf/data/testData/crappyVcf/badVariant.noVQSLOD.vcf

src/DEploid/src/vcf/data/testData/crappyVcf/badHeaderFieldNames.format.vcf

src/DEploid/src/vcf/data/testData/crappyVcf/badHeaderFieldNames.alt.vcf

src/DEploid/src/vcf/data/testData/crappyVcf/badHeaderFieldNames.qual.vcf

src/DEploid/src/vcf/data/testData/crappyVcf/badHeaderFieldNames.filter.vcf

src/DEploid/src/vcf/data/testData/crappyVcf/badHeaderFieldNames.id.vcf

src/DEploid/src/random/fastfunc.hpp

src/DEploid/src/random/random_generator.hpp

src/DEploid/src/random/fastfunc.cpp

src/DEploid/src/random/random_generator.cpp

src/DEploid/src/random/mersenne_twister.hpp

src/DEploid/src/random/mersenne_twister.cpp

src/DEploid/src/codeCogs/errorfnc.h

src/DEploid/src/codeCogs/poly_eval.h

src/DEploid/src/codeCogs/loggammafrac.h

src/DEploid/src/codeCogs/mersenne.hpp

src/DEploid/src/codeCogs/errorfnc_exp.h

src/DEploid/src/codeCogs/asympt_expn.h

src/DEploid/src/codeCogs/gamma.h

src/DEploid/src/codeCogs/log_gamma.h

src/DEploid/src/codeCogs/stirling.h

src/DEploid/src/codeCogs/expx2.h

src/DEploid/src/codeCogs/logbeta.h

src/DEploid/src/codeCogs/loggammasum.h

src/DEploid/src/codeCogs/machine_epsilon.h

src/DEploid/src/codeCogs/ln_add1.h

src/DEploid/src/codeCogs/randomSample.hpp

src/DEploid/src/codeCogs/errorfn.h

src/DEploid/src/codeCogs/xsub_ln_add1.h

src/DEploid/src/debug/mcmcDebug.cpp

src/DEploid/src/gzstream/gzstream.h

src/DEploid/src/gzstream/COPYING.LIB

src/DEploid/src/gzstream/test_gzip.C

src/DEploid/src/gzstream/logo.gif

src/DEploid/src/gzstream/version

src/DEploid/src/gzstream/README

src/DEploid/src/gzstream/test_gunzip.C

src/DEploid/src/gzstream/gzstream.cpp

src/DEploid/src/gzstream/index.html

src/DEploid/src/lasso/Makefile.am

src/DEploid/src/lasso/Brewfile

src/DEploid/src/lasso/version

src/DEploid/src/lasso/README.md

src/DEploid/src/lasso/bootstrap

src/DEploid/src/lasso/configure.ac

src/DEploid/src/lasso/COPYING

src/DEploid/src/lasso/main.cpp

src/DEploid/src/lasso/src/dEploidLasso.hpp

src/DEploid/src/lasso/src/dbgmacro.hpp

src/DEploid/src/lasso/src/lasso.hpp

src/DEploid/src/lasso/src/lassoOut.cpp

src/DEploid/src/lasso/src/lassoDBG.cpp

src/DEploid/src/lasso/src/lasso.cpp

src/DEploid/src/lasso/src/dEploidLasso.cpp

src/DEploid/src/lasso/data/PG0402-C_chrom1.wsaf

src/DEploid/src/lasso/data/myy.txt

src/DEploid/src/lasso/data/myX.txt

src/DEploid/src/lasso/data/panel_chrom2.txt

src/DEploid/src/lasso/data/PG0402-C_chrom2.wsaf

src/DEploid/src/lasso/data/panel_chrom1.txt

src/DEploid/src/lasso/utility/script.r

inst/CITATION

inst/doc/dEploid-Arguments.R

inst/doc/dEploid-Arguments.html

inst/doc/dEploid-Arguments.Rmd

inst/extdata/PG0390-C.test.alt

inst/extdata/labStrains.test.exclude.txt

inst/extdata/labStrains.test.panel.txt

inst/extdata/PG0390-C.test.vcf.gz

inst/extdata/PG0390-C.test.ref

inst/extdata/labStrains.test.PLAF.txt

inst/extdata/deploid.png

build/vignette.rds

vignettes/dEploid-Arguments.Rmd man/DEploid-package.Rd man/reexports.Rd man/plotHistWSAFPlotly.Rd man/plotAltVsRefPlotly.Rd man/plotObsExpWSAFPlotly.Rd man/dEploid.Rd man/plotWSAFVsPLAFPlotly.Rd

DEploid documentation built on April 4, 2025, 2:16 a.m.

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DEploid
Deconvolute Mixed Genomes with Unknown Proportions

Files in DEploid
Deconvolute Mixed Genomes with Unknown Proportions

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DEploid Deconvolute Mixed Genomes with Unknown Proportions

Files in DEploid Deconvolute Mixed Genomes with Unknown Proportions

R Package Documentation

Browse R Packages

We want your feedback!

DEploid
Deconvolute Mixed Genomes with Unknown Proportions

Files in DEploid
Deconvolute Mixed Genomes with Unknown Proportions