Files in emvolz-phylodynamics/phydynR
Model-based coalescent simulation and likelihood for phylodynamic inference
.Rbuildignore
.github/.gitignore
.github/workflows/pkgdown.yaml
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/RcppExports.R
R/ace.R
R/colik.pik0.R
R/colikModular.R
R/phydynR-package.R
R/treeSimulatorCpp2.R
README.md
_pkgdown.yml
bak/dCA.c
bak/dQAL-6.3.c
figure/unnamed-chunk-4-1.png
figure/unnamed-chunk-7-1.png
inst/extdata/exponential_growth_fit.RData
inst/extdata/hivModel0-fit.RData
inst/extdata/hivModel0-profbeta.RData
inst/extdata/hivSimulation.nwk
inst/extdata/sirModel0-fit.RData
inst/extdata/sirModel0-profbeta.RData
inst/extdata/sirModel0.json
inst/extdata/sirModel0.nwk
inst/extdata/sirModel0.xml
man/DatedTree.Rd
man/build.demographic.process.Rd
man/colik.Rd
man/colik.pik.fgy.Rd
man/figures/phydynRLogo.svg
man/figures/phydynr.png
man/phydynR-package.Rd
man/show.demographic.process.Rd
man/sim.co.tree.Rd
older/test.R
phydynR.Rproj
src/Makevars
src/RcppExports.cpp
src/colik.hpp
src/colikModular0.cpp
src/dAL0.cpp
src/dPikL0.cpp
src/dPikL1.cpp
src/dQALarma0.cpp
src/dQfwd.cpp
src/psa2.cpp
src/solveQALboost0.cpp
src/solveQALboost1.cpp
src/treeSimulatorCpp2.cpp
src/treeSimulatorCpp3.cpp
test/expGrowth0.R
vignettes/.gitignore
vignettes/HIV_epidemics.Rmd
vignettes/SenegalHIVmodel.Rmd
vignettes/bib/tutorials.bib
vignettes/figures/SN_model_v2.png
vignettes/figures/siiirs.pdf
vignettes/phydynR.Rmd
vignettes/simulate_genealogies.Rmd
vignettes/sir_model.Rmd
