Files in stewid/SimInf
A Framework for Data-Driven Stochastic Disease Spread Simulations

.Rbuildignore

.github/workflows/R-CI.yaml

.gitignore

.lintr

DESCRIPTION

LICENSE

Makefile

NAMESPACE

NEWS.md R/C-generator.R R/SEIR.R R/SIR.R R/SIS.R R/SISe.R R/SISe3.R R/SISe3_sp.R R/SISe_sp.R R/SimInf-package.R R/SimInf.R R/SimInf_events.R R/SimInf_indiv_events.R R/SimInf_model.R R/abc.R R/check_arguments.R R/classes.R R/degree.R R/density_ratio.R R/distance.R R/distributions.R R/edge_properties.R R/init.R R/match_compartments.R R/mparse.R R/n.R R/openmp.R R/package_skeleton.R R/pfilter.R R/plot.R R/prevalence.R R/print.R R/punchcard.R R/run.R R/trajectory.R R/u0.R R/v0.R R/valid.R README.Rmd README.md

cleanup

configure

configure.ac

data/events_SISe3.rda

data/nodes.rda

data/u0_SISe3.rda

inst/CITATION

inst/include/SimInf.h

logo/logo.png

logo/logo.svg

logo/logo.tex

man/figures/README-mparse-SIR-1.png

man/gdata-set.Rd man/gdata.Rd man/get_individuals.Rd man/indegree.Rd man/individual_events.Rd man/ldata.Rd man/logLik-SimInf_pfilter-method.Rd

man/macros/citations.Rd

man/mparse.Rd man/n_generations.Rd man/n_nodes.Rd man/node_events.Rd man/nodes.Rd man/outdegree.Rd man/package_skeleton.Rd man/pairs-SimInf_model-method.Rd man/pfilter.Rd man/plot-SimInf_abc-method.Rd man/plot-SimInf_events-method.Rd man/plot-SimInf_indiv_events-method.Rd man/plot-SimInf_pfilter-method.Rd man/plot.Rd man/prevalence-SimInf_model-method.Rd man/prevalence-SimInf_pfilter-method.Rd man/prevalence.Rd man/punchcard-set.Rd man/run.Rd man/select_matrix-set.Rd man/select_matrix.Rd man/set_num_threads.Rd man/shift_matrix-set.Rd man/shift_matrix.Rd man/show-SimInf_abc-method.Rd man/show-SimInf_events-method.Rd man/show-SimInf_indiv_events-method.Rd man/show-SimInf_model-method.Rd man/show-SimInf_pfilter-method.Rd man/summary-SimInf_abc-method.Rd man/summary-SimInf_events-method.Rd man/summary-SimInf_indiv_events-method.Rd man/summary-SimInf_model-method.Rd man/summary-SimInf_pfilter-method.Rd man/trajectory-SimInf_model-method.Rd man/trajectory-SimInf_pfilter-method.Rd man/trajectory.Rd man/u0-set.Rd man/u0.Rd man/u0_SEIR.Rd man/u0_SIR.Rd man/u0_SIS.Rd man/u0_SISe.Rd man/u0_SISe3.Rd man/v0-set.Rd

src/Makevars.in

src/Makevars.ucrt

src/Makevars.win

src/SimInf-win.def

src/SimInf.c

src/init.c

src/misc/SimInf_abc.c

src/misc/SimInf_arg.c

src/misc/SimInf_arg.h

src/misc/SimInf_clean_indiv_events.c

src/misc/SimInf_distance_matrix.c

src/misc/SimInf_forward_euler_linear_decay.c

src/misc/SimInf_ldata.c

src/misc/SimInf_local_spread.c

src/misc/SimInf_openmp.c

src/misc/SimInf_openmp.h

src/misc/SimInf_particle_filter.c

src/misc/SimInf_trajectory.c

src/misc/binheap.c

src/misc/binheap.h

src/misc/kvec.h

src/models/SEIR.c

src/models/SIR.c

src/models/SIS.c

src/models/SISe.c

src/models/SISe3.c

src/models/SISe3_sp.c

src/models/SISe_sp.c

src/solvers/SimInf_solver.c

src/solvers/SimInf_solver.h

src/solvers/aem/SimInf_solver_aem.c

src/solvers/aem/SimInf_solver_aem.h

src/solvers/ssm/SimInf_solver_ssm.c

src/solvers/ssm/SimInf_solver_ssm.h

tests/SEIR.R tests/SIR.R tests/SIS.R tests/SISe.R tests/SISe3.R tests/SISe3_sp.R tests/SISe_sp.R tests/SimInf.R tests/SimInf_events.R tests/SimInf_model.R tests/abc-gdata.R tests/abc-ldata.R tests/abc.R tests/density_ratio.R tests/distributions.R tests/edge_properties.R tests/indiv_events.R tests/ldata_sp.R tests/match_compartments.R tests/measures.R tests/mparse.R tests/package_skeleton.R tests/pfilter.R tests/phi.R tests/prevalence.R tests/punchcard.R tests/sample_select.R tests/solver_aem.R tests/u0.R tests/util/check.R tests/v0.R tools/winlibs.R

vignettes/SimInf.Rnw

vignettes/SimInf.bib

vignettes/img/SIR.pdf

vignettes/img/SIR.svg

vignettes/img/SIR.tex

vignettes/img/SISe3_sp.pdf

vignettes/img/SISe3_sp.svg

vignettes/img/SISe3_sp.tex

vignettes/img/SISe_sp-prevalence.pdf vignettes/img/enter.pdf

vignettes/img/enter.svg

vignettes/img/enter.tex

vignettes/img/exit.pdf

vignettes/img/exit.svg

vignettes/img/exit.tex

vignettes/img/external-shift.pdf

vignettes/img/external-shift.svg

vignettes/img/external-shift.tex

vignettes/img/external.pdf

vignettes/img/external.svg

vignettes/img/external.tex

vignettes/img/internal.pdf

vignettes/img/internal.svg

vignettes/img/internal.tex

vignettes/img/mparse-epicurve.pdf vignettes/img/overview.pdf

vignettes/img/overview.svg

vignettes/img/overview.tex

vignettes/img/predator-prey.png

vignettes/img/temporal-network.pdf

vignettes/img/temporal-network.svg

vignettes/img/temporal-network.tex

vignettes/mparse.Rmd vignettes/post-process-data.Rmd vignettes/scheduled-events.Rmd

stewid/SimInf documentation built on July 1, 2024, 2:29 a.m.

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stewid/SimInf
A Framework for Data-Driven Stochastic Disease Spread Simulations

Files in stewid/SimInf
A Framework for Data-Driven Stochastic Disease Spread Simulations

R Package Documentation

Browse R Packages

We want your feedback!

stewid/SimInf A Framework for Data-Driven Stochastic Disease Spread Simulations

Files in stewid/SimInf A Framework for Data-Driven Stochastic Disease Spread Simulations

R Package Documentation

Browse R Packages

We want your feedback!

stewid/SimInf
A Framework for Data-Driven Stochastic Disease Spread Simulations

Files in stewid/SimInf
A Framework for Data-Driven Stochastic Disease Spread Simulations