Package: readsdr 0.3.0.9001

readsdr: Translate Models from System Dynamics Software into 'R'

The goal of 'readsdr' is to bridge the design capabilities from specialised System Dynamics software with the powerful numerical tools offered by 'R' libraries. The package accomplishes this goal by parsing 'XMILE' files ('Vensim' and 'Stella') models into 'R' objects to construct networks (graph theory); 'ODE' functions for 'Stan'; and inputs to simulate via 'deSolve' as described in Duggan (2016) <doi:10.1007/978-3-319-34043-2>.

Authors:Jair Andrade [aut, cre]

readsdr_0.3.0.9001.tar.gz
readsdr_0.3.0.9001.zip(r-4.7)readsdr_0.3.0.9001.zip(r-4.6)readsdr_0.3.0.9001.zip(r-4.5)
readsdr_0.3.0.9001.tgz(r-4.6-any)readsdr_0.3.0.9001.tgz(r-4.5-any)
readsdr_0.3.0.9001.tar.gz(r-4.7-any)readsdr_0.3.0.9001.tar.gz(r-4.6-any)
readsdr_0.3.0.9001.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
readsdr/json (API)

# Install 'readsdr' in R:

install.packages('readsdr', repos = c('https://jandraor.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/jandraor/readsdr/issues

Datasets:

Maryland - Influenza in Maryland during the 1918 pandemic

On CRAN:

stan system-dynamics

5.80 score 20 stars 63 scripts 292 downloads 31 exports 28 dependencies

Last updated from:5cba7ef2d9. Checks:9 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	OK	145
source / vignettes	OK	185
linux-release-x86_64	OK	144
macos-release-arm64	OK	169
macos-oldrel-arm64	OK	180
windows-devel	OK	95
windows-release	OK	99
windows-oldrel	OK	90
wasm-release	OK	116

Exports:%>%create_stan_function expit extract_timeseries_stock extract_timeseries_var inv logit read_xmile sd_Bayes sd_conf_intervals sd_constants sd_data_generator_fun sd_fixed_delay sd_impact_inputs sd_interpret_estimates sd_loglik_fun sd_measurements sd_net_change sd_posterior_fun sd_prior sd_prior_checks sd_pulse_s sd_pulse_train sd_pulse_v sd_sensitivity_run sd_simulate sd_stocks sd_what_if_from_time stan_ode_function timestep xmile_to_deSolve

Dependencies:cli codetools deSolve digest dplyr future future.apply generics globals glue lifecycle listenv magrittr parallelly pillar pkgconfig progressr purrr R6 rlang stringi stringr tibble tidyselect utf8 vctrs withr xml2

Introduction to readsdr

Model: SIR

Rendered fromIntroduction_to_readsdr.Rmdusingknitr::rmarkdown

Last update: 2024-04-05
Started: 2020-04-06

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Create a Stan's ODE function from an XMILE file	create_stan_function
Expit transformation	expit
Extract the values over time of a stock from a Stan fit	extract_timeseries_stock
Extract the values over time of a variable from a Stan fit	extract_timeseries_var
Inverse of a number	inv
Logit transformation	logit
Influenza in Maryland during the 1918 pandemic	Maryland
Read an XMILE file into R	read_xmile
Create Stan file for Bayesian inference	sd_Bayes
Calculate confidence intervals	sd_conf_intervals
Summarise the information of a model's constants in a data frame	sd_constants
Function factory for SBC	sd_data_generator_fun
Fixed delay	sd_fixed_delay
Construct inputs for performing structural analysis via the impact method	sd_impact_inputs
Interpret estimates	sd_interpret_estimates
Generate a log-likelihood function for an SD model	sd_loglik_fun
Generate measurements	sd_measurements
Estimate the net change of a stock in discrete times	sd_net_change
Posterior function	sd_posterior_fun
Specify priors for the estimated parameters.	sd_prior
Prior predictive checks	sd_prior_checks
Replicate the behaviour of the PULSE function from Stella	sd_pulse_s
PULSE TRAIN	sd_pulse_train
Replicate the behaviour of the PULSE function from Vensim	sd_pulse_v
Perform a sensitivity run on a System Dynamics model	sd_sensitivity_run
Simulate a System Dynamics model	sd_simulate
Summarise the information of a model's stocks in a data frame	sd_stocks
What if from time t we change the value of some parameters	sd_what_if_from_time
Create Stan ODE function	stan_ode_function
Parse XMILE to deSolve components	xmile_to_deSolve