Files in perfectphyloR
Reconstruct Perfect Phylogenies from DNA Sequence Data
configure
MD5
README.md
NAMESPACE
configure.ac
DESCRIPTION
cleanup
R/RcppExports.R
R/HHG_test.R
R/find_SNV.R
R/reconstructPPregion.R
R/association_tests_utility_functions.R
R/association_tests.R
R/vcf_to_hapMat.R
R/tdend_data.R
R/testDendAssoRI.R
R/order_SNV.R
R/order_SNV_utility_functions.R
R/phenoDist_data.R
R/make_dend_utility_functions.R
R/build_dend.R
R/vcf_to_hapMat_utility_function.R
R/make_dend.R
R/ex_data.R
R/dCor_test.R
R/subset_hapMat.R
R/reconstruct_PP.R
R/mantel_test.R
R/ex_small_data.R
R/rand_index_test.R
R/plot_dend.R
R/find_SNV_utility_functions.R
R/RV_test.R
R/rdistMatrix.R
R/create_HapMat.R
R/select_window.R
src/Makevars.win
src/dCorCoeff.cpp
src/RcppExports.cpp
src/distMat.cpp
src/RVcoeff.cpp
src/Makevars.in
inst/doc/perfectphyloR.pdf.asis
inst/doc/perfectphyloR.pdf
build/vignette.rds
vignettes/perfectphyloR.pdf.asis
data/ex_hapMat_data.rda
data/tdend.rda
data/phenoDist.rda
data/ex_hapMatSmall_data.rda
man/MantelTest.Rd
man/orderSNVs.Rd
man/vcftohapMat.Rd
man/rdistMatrix.Rd
man/performTest.Rd
man/makeDend.Rd
man/extractHaplos.Rd
man/noVariation.Rd
man/reconstructPPregion.Rd
man/perfectphyloR-package.Rd
man/newNode.Rd
man/RVcoeff.Rd
man/makePartition.Rd
man/HHGtest.Rd
man/fourGamete.Rd
man/dendToNewick.Rd
man/phenoDist.Rd
man/ex_hapMat_data.Rd
man/makeNewickRec.Rd
man/orderColsAncestry.Rd
man/mantelStat.Rd
man/ex_hapMatSmall_data.Rd
man/getNextLeftFocal.Rd
man/subsetHapMat.Rd
man/distMatRcpp.Rd
man/reconstructPP.Rd
man/testAssoDist.Rd
man/checkCompatible.Rd
man/dCor.Rd
man/buildDend.Rd
man/RandIndexTest.Rd
man/tdend.Rd
man/dCorTest.Rd
man/splitTips.Rd
man/RVtest.Rd
man/getnSNVs.Rd
man/findSNVs.Rd
man/plotDend.Rd
man/selectWindow.Rd
man/getNextFromFocal.Rd
man/createHapMat.Rd
man/assoTest.Rd
man/testDendAssoRI.Rd
man/RandIndex.Rd
man/getNextRightFocal.Rd
man/figures/tree.pdf
man/figures/trtable.png
man/figures/README-unnamed-chunk-3-1.png
man/figures/trtable.pdf
man/figures/treedist.pdf
man/figures/README-pressure-1.png
man/figures/treedist.png
man/figures/tree.png
