Files in mrc-ide/dust

Iterate Multiple Realisations of Stochastic Models

.Rbuildignore

.covrignore

.gitattributes

.github/.gitignore

.github/workflows/R-CMD-check.yaml

.github/workflows/make-release.yaml

.github/workflows/pkgdown.yaml

.github/workflows/test-coverage.yaml

.github/workflows/version-check.yaml

.gitignore

.hadolint.yaml

.lintr

DESCRIPTION

LICENSE

LICENSE.md

Makefile

NAMESPACE

NEWS.md R/compile.R R/cpp11.R R/cuda.R R/data.R R/dust.R R/dust_generator.R R/examples.R R/interface.R R/metadata.R R/ode_control.R R/openmp.R R/package.R R/rng.R R/rng_distributed.R R/rng_pointer.R R/utils.R R/zzz.R README.md

_pkgdown.yml

buildkite/pipeline.yml

developing.md

docker/Dockerfile

docker/Dockerfile.cuda

docker/Rprofile.site

docker/build

docker/build_cuda

docker/common

docker/compile_gpu_model

docker/push

docker/start

extra/.gitignore

extra/generate.sh

extra/harness.cpp

extra/targets

inst/CITATION

inst/WORDLIST

inst/cuda/dust.cu

inst/cuda/dust.hpp

inst/examples/adjoint/sir.cpp

inst/examples/ode/logistic.cpp

inst/examples/ode/malaria.cpp

inst/examples/ode/parallel.cpp

inst/examples/ode/stochastic.cpp

inst/examples/parallel.cpp

inst/examples/sir.cpp

inst/examples/sirs.cpp

inst/examples/variable.cpp

inst/examples/volatility.cpp

inst/examples/walk.cpp

inst/extdata/malaria_cases.csv

inst/include/dust/adjoint.hpp

inst/include/dust/dust_cpu.hpp

inst/include/dust/filter.hpp

inst/include/dust/filter_state.hpp

inst/include/dust/filter_tools.hpp

inst/include/dust/gpu/call.hpp

inst/include/dust/gpu/cuda.hpp

inst/include/dust/gpu/device_resample.hpp

inst/include/dust/gpu/device_state.hpp

inst/include/dust/gpu/dust_gpu.hpp

inst/include/dust/gpu/filter.hpp

inst/include/dust/gpu/filter_kernels.hpp

inst/include/dust/gpu/filter_state.hpp

inst/include/dust/gpu/gpu_info.hpp

inst/include/dust/gpu/kernels.hpp

inst/include/dust/gpu/launch_control.hpp

inst/include/dust/gpu/types.hpp

inst/include/dust/gpu/utils.hpp

inst/include/dust/interpolate/interpolate.hpp

inst/include/dust/interpolate/spline.hpp

inst/include/dust/ode/control.hpp

inst/include/dust/ode/dust_ode.hpp

inst/include/dust/ode/initial_step_size.hpp

inst/include/dust/ode/solver.hpp

inst/include/dust/ode/statistics.hpp

inst/include/dust/ode/stepper.hpp

inst/include/dust/particle.hpp

inst/include/dust/r/dust.hpp

inst/include/dust/r/gpu.hpp

inst/include/dust/r/gpu_info.hpp

inst/include/dust/r/helpers.hpp

inst/include/dust/r/helpers_ode.hpp

inst/include/dust/r/random.hpp

inst/include/dust/r/utils.hpp

inst/include/dust/random/binomial.hpp

inst/include/dust/random/binomial_gamma_tables.hpp

inst/include/dust/random/cauchy.hpp

inst/include/dust/random/cuda_compatibility.hpp

inst/include/dust/random/density.hpp

inst/include/dust/random/exponential.hpp

inst/include/dust/random/gamma.hpp

inst/include/dust/random/generator.hpp

inst/include/dust/random/hypergeometric.hpp

inst/include/dust/random/math.hpp

inst/include/dust/random/multinomial.hpp

inst/include/dust/random/nbinomial.hpp

inst/include/dust/random/normal.hpp

inst/include/dust/random/normal_box_muller.hpp

inst/include/dust/random/normal_polar.hpp

inst/include/dust/random/normal_ziggurat.hpp

inst/include/dust/random/normal_ziggurat_tables.hpp

inst/include/dust/random/numeric.hpp

inst/include/dust/random/poisson.hpp

inst/include/dust/random/prng.hpp

inst/include/dust/random/random.hpp

inst/include/dust/random/uniform.hpp

inst/include/dust/random/utils.hpp

inst/include/dust/random/version.hpp

inst/include/dust/random/xoroshiro128.hpp

inst/include/dust/random/xoshiro128.hpp

inst/include/dust/random/xoshiro256.hpp

inst/include/dust/random/xoshiro512.hpp

inst/include/dust/random/xoshiro_state.hpp

inst/include/dust/types.hpp

inst/include/dust/utils.hpp

inst/random/openmp/Makefile.in

inst/random/openmp/README.md

inst/random/openmp/configure

inst/random/openmp/rnguse.cpp

inst/random/package/DESCRIPTION

inst/random/package/NAMESPACE

inst/random/package/src/rnguse.cpp

inst/template/DESCRIPTION

inst/template/Makevars

inst/template/Makevars.cuda

inst/template/Makevars.pkg

inst/template/NAMESPACE

inst/template/binomial_gamma_tables.hpp

inst/template/dust.R.template

inst/template/dust.cpp

inst/template/dust.hpp

inst/template/dust_methods.cpp

inst/template/dust_methods.hpp

inst/template/math.hpp

inst/template/normal_ziggurat_tables.hpp

inst/template/version.hpp

man/dust.Rd man/dust_cuda_configuration.Rd man/dust_cuda_options.Rd man/dust_data.Rd man/dust_example.Rd man/dust_generate.Rd man/dust_generator.Rd man/dust_ode_control.Rd man/dust_openmp_support.Rd man/dust_openmp_threads.Rd man/dust_package.Rd man/dust_repair_environment.Rd man/dust_rng.Rd man/dust_rng_distributed.Rd man/dust_rng_pointer.Rd

man/figures/logo.png

scripts/build_vignette

scripts/check_headers

scripts/docs_build

scripts/docs_build_cpp

scripts/docs_push

scripts/remove_examples

scripts/update_dust_generator

scripts/update_dust_math

scripts/update_example

scripts/update_gamma_tables

scripts/update_version

scripts/update_ziggurat_tables

scripts/version_check

sphinx/Doxyfile

sphinx/Makefile

sphinx/conf.py

sphinx/examples/.gitignore

sphinx/examples/Makefile

sphinx/examples/random-jump.cpp

sphinx/examples/random-primitive.cpp

sphinx/examples/random-prng.cpp

sphinx/examples/random-seed.cpp

sphinx/examples/random-simple.cpp

sphinx/examples/random-state.cpp

sphinx/examples/random-univariate.cpp

sphinx/examples/random-version.cpp

sphinx/index.rst

sphinx/random-distributions.rst

sphinx/random-jump.rst

sphinx/random-parallel.rst

sphinx/random-primitive.rst

sphinx/random-r.rst

sphinx/random-seed.rst

sphinx/random-state.rst

sphinx/random-version.rst

sphinx/random.rst

src/Makevars

src/cpp11.cpp

src/densities.cpp

src/dust_rng.cpp

src/dust_rng_pointer.cpp

src/logistic.cpp

src/openmp.cpp

src/sir.cpp

src/sirs.cpp

src/test_cuda_launch_control.cpp

src/test_interpolate.cpp

src/test_rng.cpp

src/tools.cpp

src/variable.cpp

src/volatility.cpp

src/walk.cpp

tests/testthat.R

tests/testthat/examples/init.cpp

tests/testthat/examples/pkg/DESCRIPTION

tests/testthat/examples/pkg/NAMESPACE

tests/testthat/helper-cuda.R tests/testthat/helper-dust.R tests/testthat/helper-filter.R tests/testthat/helper-ode.R tests/testthat/helper-rng.R tests/testthat/test-adjoint.R tests/testthat/test-data.R tests/testthat/test-densities.R tests/testthat/test-example.R tests/testthat/test-filter.R tests/testthat/test-gpu.R tests/testthat/test-interface.R tests/testthat/test-interpolate.R tests/testthat/test-metadata.R tests/testthat/test-multi.R tests/testthat/test-ode-control.R tests/testthat/test-ode-interface.R tests/testthat/test-ode-solver.R tests/testthat/test-ode-state.R tests/testthat/test-openmp.R tests/testthat/test-package.R tests/testthat/test-rng-distributed.R tests/testthat/test-rng-interface.R tests/testthat/test-rng.R tests/testthat/test-utils.R tests/testthat/test-xoshiro.R

tests/testthat/xoshiro-ref/xoroshiro128plus

tests/testthat/xoshiro-ref/xoroshiro128plusplus

tests/testthat/xoshiro-ref/xoroshiro128starstar

tests/testthat/xoshiro-ref/xoshiro128plus

tests/testthat/xoshiro-ref/xoshiro128plusplus

tests/testthat/xoshiro-ref/xoshiro128starstar

tests/testthat/xoshiro-ref/xoshiro256plus

tests/testthat/xoshiro-ref/xoshiro256plusplus

tests/testthat/xoshiro-ref/xoshiro256starstar

tests/testthat/xoshiro-ref/xoshiro512plus

tests/testthat/xoshiro-ref/xoshiro512plusplus

tests/testthat/xoshiro-ref/xoshiro512starstar

vignettes/.gitignore

vignettes/data.Rmd vignettes/design.Rmd vignettes/dust.Rmd vignettes/gpu.Rmd vignettes/multi.Rmd vignettes/rng.Rmd vignettes/rng_algorithms.Rmd vignettes/rng_distributed.Rmd vignettes/rng_package.Rmd vignettes_src/gpu.Rmd vignettes_src/rng_distributed.Rmd vignettes_src/rng_package.Rmd

vignettes_src/rng_pi_dust.cpp

vignettes_src/rng_pi_parallel.cpp

vignettes_src/rng_pi_r.cpp

mrc-ide/dust documentation built on Oct. 6, 2023, 8:26 a.m.