Package: dust2 0.3.9
Rich FitzJohn
dust2: Next Generation dust
Experimental sources for the next generation of dust, which will properly adopt the particle filter, have support for partial parameter updates, support for multiple parameter sets and hopefully better GPU/MPI support.
Authors:
dust2_0.3.9.tar.gz
dust2_0.3.9.zip(r-4.5)dust2_0.3.9.zip(r-4.4)dust2_0.3.9.zip(r-4.3)
dust2_0.3.9.tgz(r-4.4-x86_64)dust2_0.3.9.tgz(r-4.4-arm64)dust2_0.3.9.tgz(r-4.3-x86_64)dust2_0.3.9.tgz(r-4.3-arm64)
dust2_0.3.9.tar.gz(r-4.5-noble)dust2_0.3.9.tar.gz(r-4.4-noble)
dust2_0.3.9.tgz(r-4.4-emscripten)dust2_0.3.9.tgz(r-4.3-emscripten)
dust2.pdf |dust2.html✨
dust2/json (API)
| # Install 'dust2' in R: |
| install.packages('dust2', repos = c('https://mrc-ide.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/mrc-ide/dust2/issues
Last updated 19 hours agofrom:a39dabf1b5 (on main). Checks:OK: 7 NOTE: 2. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 22 2024 |
| R-4.5-win-x86_64 | NOTE | Nov 22 2024 |
| R-4.5-linux-x86_64 | NOTE | Nov 22 2024 |
| R-4.4-win-x86_64 | OK | Nov 22 2024 |
| R-4.4-mac-x86_64 | OK | Nov 22 2024 |
| R-4.4-mac-aarch64 | OK | Nov 22 2024 |
| R-4.3-win-x86_64 | OK | Nov 22 2024 |
| R-4.3-mac-x86_64 | OK | Nov 22 2024 |
| R-4.3-mac-aarch64 | OK | Nov 22 2024 |
Exports:dust_browser_continuedust_browser_enableddust_browser_verbositydust_compiledust_exampledust_filter_createdust_filter_datadust_likelihood_last_gradientdust_likelihood_last_statedust_likelihood_last_trajectoriesdust_likelihood_montydust_likelihood_rng_statedust_likelihood_rundust_likelihood_set_rng_statedust_ode_controldust_openmp_supportdust_openmp_threadsdust_packagedust_system_compare_datadust_system_createdust_system_internalsdust_system_reorderdust_system_rng_statedust_system_run_to_timedust_system_set_rng_statedust_system_set_statedust_system_set_state_initialdust_system_set_timedust_system_simulatedust_system_statedust_system_timedust_system_update_parsdust_unfilter_createdust_unpack_indexdust_unpack_state
Comparing dust systems to data
Rendered fromdata.Rmdusingknitr::rmarkdownon Nov 22 2024.Last update: 2024-10-22
Started: 2024-10-15
Details
Rendered fromdetails.Rmdusingknitr::rmarkdownon Nov 22 2024.Last update: 2024-10-15
Started: 2024-10-02
Introduction to dust
Rendered fromdust2.Rmdusingknitr::rmarkdownon Nov 22 2024.Last update: 2024-10-21
Started: 2024-10-15
Migrating from dust 1.x.x
Rendered frommigrating.Rmdusingknitr::rmarkdownon Nov 22 2024.Last update: 2024-11-15
Started: 2024-11-04
Packaging dust systems
Rendered frompackaging.Rmdusingknitr::rmarkdownon Nov 22 2024.Last update: 2024-10-15
Started: 2024-10-15
Periodic variables details
Rendered fromperiodic.Rmdusingknitr::rmarkdownon Nov 22 2024.Last update: 2024-08-21
Started: 2024-07-10
Principles and design of dust
Rendered fromdesign.Rmdusingknitr::rmarkdownon Nov 22 2024.Last update: 2024-10-15
Started: 2024-10-15
Writing dust2 systems
Rendered fromwriting.Rmdusingknitr::rmarkdownon Nov 22 2024.Last update: 2024-10-28
Started: 2024-10-15
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| The dust debugger | dust_browser dust_browser_continue dust_browser_enabled dust_browser_verbosity |
| Compile a dust2 system | dust_compile |
| Example generators | dust_example |
| Create a particle filter | dust_filter_create |
| Prepare data | dust_filter_data |
| Create copy of a dust likelihood object | dust_likelihood_copy |
| Fetch last likelihood gradient | dust_likelihood_last_gradient |
| Get likelihood state | dust_likelihood_last_state |
| Fetch last likelihood trajectories | dust_likelihood_last_trajectories |
| Create monty model | dust_likelihood_monty |
| Get filter RNG state | dust_likelihood_rng_state dust_likelihood_set_rng_state |
| Compute likelihood | dust_likelihood_run |
| Create a dust_ode_control object. | dust_ode_control |
| Information about OpenMP support | dust_openmp_support |
| Select number of threads | dust_openmp_threads |
| Create dust system in package | dust_package |
| Compare system state against data | dust_system_compare_data |
| Create a dust system object | dust_system_create |
| Fetch system internals | dust_system_internals |
| Reorder states | dust_system_reorder |
| Fetch and set rng state | dust_system_rng_state dust_system_set_rng_state |
| Run system | dust_system_run_to_time |
| Set system state | dust_system_set_state |
| Set system state to initial conditions | dust_system_set_state_initial |
| Set system time | dust_system_set_time |
| Simulate system | dust_system_simulate |
| Extract system state | dust_system_state |
| Fetch system time | dust_system_time |
| Update parameters | dust_system_update_pars |
| Create an unfilter | dust_unfilter_create |
| Unpack state | dust_unpack_index dust_unpack_state |
