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idmodelr
View on CRAN: Click
here
Download and install idmodelr package within the R console
Install from CRAN:
install.packages("idmodelr")
Install from Github:
library("remotes")
install_github("cran/idmodelr")
Install by package version:
library("remotes")
install_version("idmodelr", "0.4.0")
Attach the package and use:
library("idmodelr")
Maintained by
Sam Abbott
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2019-08-01
Latest Update: 2022-09-02
Description:
Explore a range of infectious disease models in a consistent
framework. The primary aim of 'idmodelr' is to provide a library of
infectious disease models for researchers, students, and other interested
individuals. These models can be used to understand the underlying dynamics
and as a reference point when developing models for research. 'idmodelr'
also provides a range of utilities. These include: plotting functionality;
a simulation wrapper; scenario analysis tooling; an interactive dashboard;
tools for handling mult-dimensional models; and both model and parameter
look up tables. Unlike other modelling packages such as 'pomp'
( ), 'libbi' ()
and 'EpiModel' (), 'idmodelr' serves primarily as
an educational resource. It is most comparable to epirecipes
() but provides a more
consistent framework, an R based workflow, and additional utility tooling.
After users have explored model dynamics with 'idmodelr' they may then
implement their model using one of these packages in order to utilise the
model fitting tools they provide. For newer modellers, this package
reduces the barrier to entry by containing multiple infectious disease
models, providing a consistent framework for simulation and visualisation,
and signposting towards other, more research focussed, resources.
How to cite:
Sam Abbott (2019). idmodelr: Infectious Disease Model Library and Utilities. R package version 0.4.0, https://cran.r-project.org/web/packages/idmodelr. Accessed 22 Dec. 2024.
Previous versions and publish date:
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imports, suggests or enhances
Complete documentation for idmodelr
Functions, R codes and Examples using
the idmodelr R package
Some associated functions: SEIRS_demographics_ode . SEIRS_ode . SEIR_demographics_ode . SEIR_ode . SEIS_demographics_ode . SEIS_ode . SEI_demographics_ode . SEI_ode . SHLIR_demographics_ode . SHLIR_ode . SHLITR_demographics_ode . SHLITR_ode . SHLITR_risk_demographics_ode . SHLITR_risk_ode . SIRS_demographics_ode . SIRS_ode . SIRS_vaccination_demographics_ode . SIRS_vaccination_ode . SIR_demographics_ode . SIR_ode . SIR_vaccination_demographics_ode . SIR_vaccination_ode . SIS_demographics_ode . SIS_ode . SI_demographics_ode . SI_ode . add_pointer_struct . aggregate_model . aggregate_model_internal . combine_strat_model_output . combine_to_age_model . estimate_norm_dist_from_ci . gather_strat_multi_variable . gather_strat_variable . generate_parameter_permutations . idmodelr-package . model_details . model_df_to_vector . parameter_details . plot_model . required_parameters . scenario_analysis . simulate_model . solve_ode . summarise_model . summarise_strat_var . summarise_var_by_strat .
Some associated R codes: SEI.R . SEIR.R . SEIRS.R . SEIS.R . SHLIR.R . SHLITR.R . SI.R . SIR.R . SIRS.R . SIS.R . add_pointer_struct.R . aggregate_model.R . aggregate_model_internal.R . combine_strat_model_output.R . combine_to_age_model.R . estimate_norm_dist_from_ci.R . gather_strat_multi_variable.R . gather_strat_variable.R . generate_parameter_permutations.R . idmodelr.R . model_details.R . model_df_to_vector.R . parameter_details.R . plot_model.R . required_parameters.R . scenario_analysis.R . simulate_model.R . solve.R . summarise_model.R . summarise_strat_var.R . summarise_var_by_strat.R . Full idmodelr package functions and examples
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