Files in aphylo
Statistical Inference and Prediction of Annotations in Phylogenetic Trees
configure
MD5
ChangeLog
NAMESPACE
configure.ac
DESCRIPTION
LICENSE
cleanup
R/RcppExports.R
R/balance.R
R/multiaphylo.R
R/color-palettes.R
R/plot_logLik.R
R/aphylo-ape-info.R
R/prediction_score.R
R/aphylo_mle.R
R/priors.R
R/indexing.R
R/data-management.R
R/simulation.R
R/list_offspring.R
R/aphylo_from_data_frame.R
R/predict.R
R/pie.r
R/read_sifter.R
R/cv.R
R/impute_duplications.R
R/loglike.R
R/plot.R
R/read_nhx.R
R/panther.R
R/prune.R
R/aphylo_mcmc.R
R/estimation.R
R/polygon.r
R/accuracy_sifter.R
R/formulas.R
R/aphylo-package.R
R/ape.R
R/misc.r
src/Makevars.win
src/RcppExports.cpp
src/sim_phylo.cpp
src/predict.cpp
src/aphylo_pruner.cpp
src/prediction_score_rand.cpp
src/misc.cpp
src/TreeData.hpp
src/loglikelihood.h
src/misc.h
src/auc.cpp
src/Makevars.in
inst/NEWS
inst/tree.tree
inst/CITATION
inst/include/typedefs.hpp
inst/include/treeiterator_meat.hpp
inst/include/tree_bones.hpp
inst/include/treeiterator_bones.hpp
inst/include/pruner.hpp
inst/include/tree_meat.hpp
inst/doc/example.html
inst/doc/example.R
inst/doc/example.Rmd
inst/tinytest/test-aphylo_from_data_frame.R
inst/tinytest/test-aphylo-ape-info.r
inst/tinytest/test-parameter-estimates.r
inst/tinytest/test-formula.r
inst/tinytest/test-panther.r
inst/tinytest/test-loglikelihood.r
inst/tinytest/test-pseq-reduce.r
inst/tinytest/test-impute_duplications.R
inst/tinytest/test-predict-ans1.rds
inst/tinytest/test-balance.r
inst/tinytest/test-predict-ans0.rds
inst/tinytest/test-data-management.r
inst/tinytest/test-sim_phylo.r
inst/tinytest/test-plot_loglike.r
inst/tinytest/test-predict.r
inst/tinytest/test-cv.R
inst/tinytest/test-auc.r
inst/tinytest/test-parameter-estimates-and-formulas.r
inst/tinytest/test-indexing.R
build/vignette.rds
tests/tinytest.R
vignettes/example.Rmd
data/faketree.rda
data/fakeexperiment.rda
man/auc.Rd
man/prediction_score.Rd
man/states.Rd
man/posterior-probabilities.Rd
man/aphylo-index.Rd
man/sim_fun_on_tree.Rd
man/aphylo_mcmc.Rd
man/mislabel.Rd
man/aphylo-methods.Rd
man/imputate_duplications.Rd
man/panther-tree.Rd
man/read_nhx.Rd
man/aphylo_cv.Rd
man/aphylo-package.Rd
man/faketree.Rd
man/list_offspring.Rd
man/aphylo-info.Rd
man/sim_tree.Rd
man/write_pli.Rd
man/accuracy_sifter.Rd
man/LogLike.Rd
man/balance_ann.Rd
man/plot_logLik.Rd
man/aphylo_mle.Rd
man/read_pli.Rd
man/plot.aphylo_prediction_score.Rd
man/aphylo_estimates.Rd
man/multiAphylo.Rd
man/new_aphylo_pruner.Rd
man/fakeexperiment.Rd
man/rdrop_annotations.Rd
man/aphylo-model.Rd
man/bprior.Rd
man/as.phylo.Rd
man/raphylo.Rd
man/aphylo_from_data_frame.Rd
man/ape-methods.Rd
man/plot_multivariate.Rd
man/aphylo-class.Rd
man/figures/MLE-1.png
man/figures/MCMC-2.png
man/figures/MCMC-1.png
man/figures/logo-raw.svg
man/figures/Predict-1.png
man/figures/get-offspring-2.png
man/figures/get-offspring-1.png
man/figures/logo.svg
