Files in donkeyshot/phybreak
Analysis of Outbreaks with Sequence Data

.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
NEWS.md R/RcppExports.R R/burnin-phybreak.R R/data_documentation.R R/get-phybreak.R R/infectorsets.R R/logLik-phybreak.R R/make-phyloclass.R R/mcmc-environment-functions.R R/mcmc-updatehost-paths.R R/mcmc-updateparameters.R R/mcmc-updatetopology.R R/phybreak-package.R R/phybreak.R R/phybreakdata.R R/phylotree.R R/plot-phybreak.R R/plot-simphybreak.R R/plotPhylo.R R/plotTrans.R R/sample-minitrees.R R/sample-phybreak.R R/sim-phybreak.R R/thin-phybreak.R R/transtree.R R/treetransformations.R README.md cran-comments.md
data/AvianFluH7N7_2003.rda
data/FMD_2001.rda
data/FMD_2007.rda
data/M_tuberculosis_2013.rda
inst/CITATION
man/AvianFluH7N7_2003.Rd man/FMD_2001.Rd man/FMD_2007.Rd man/M_tuberculosis_2013.Rd man/burnin.phybreak.Rd man/get.phybreak.Rd man/infectorsets.Rd man/logLik.phybreak.Rd man/phybreak.Rd man/phybreakdata.Rd man/phylotree.Rd man/plot.phybreak.Rd man/plot.phybreakdata.Rd man/plotPhylo.Rd man/plotTrans.Rd man/sample.phybreak.Rd man/sim.phybreak.Rd man/thin_phybreak.Rd man/transtree.Rd
phybreak.Rproj
src/CCphylo_support.cpp
src/CCphylo_support.h
src/CCphylotree.cpp
src/CCtrans_support.cpp
src/CCtrans_support.h
src/CCtranstree.cpp
src/RcppExports.cpp
src/likseq.cpp
src/likseqenv.cpp
src/mcctree.cpp
src/mtcctree.cpp
src/ptr.cpp
src/sctwh3.cpp
tests/testthat.R tests/testthat/test_phybreak.R tests/testthat/test_phybreakdata.R vignettes/phybreak_intro.Rmd
vignettes/phybreak_intro_cache/html/__globals
vignettes/phybreak_intro_cache/html/__objects
vignettes/phybreak_intro_cache/html/__packages
vignettes/phybreak_intro_cache/html/burnin_a55d71de0c22cd8aa887b8d13475bfaa.RData
vignettes/phybreak_intro_cache/html/ms_e4b914bf3d7b91a4206cec0f69fbd18b.RData
vignettes/phybreak_intro_cache/html/sample_3fa3a795c1f35e7e1b1cdd62e2d3fb9d.RData
vignettes/phybreak_intro_files/figure-html/unnamed-chunk-12-1.png
vignettes/phybreak_intro_files/figure-html/unnamed-chunk-16-1.png
vignettes/phybreak_intro_files/figure-html/unnamed-chunk-18-1.png
vignettes/phybreak_intro_files/figure-html/unnamed-chunk-22-1.png
vignettes/phybreak_intro_files/figure-html/unnamed-chunk-8-1.png
vignettes/phybreak_intro_files/figure-html/unnamed-chunk-8-2.png
vignettes/phybreak_intro_files/figure-html/unnamed-chunk-9-1.png
vignettes/phybreak_intro_files/figure-html/unnamed-chunk-9-2.png
donkeyshot/phybreak documentation built on Oct. 19, 2017, 1:08 p.m.