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EpiModel
View on CRAN: Click
here
Download and install EpiModel package within the R console
Install from CRAN:
install.packages("EpiModel")
Install from Github:
library("remotes")
install_github("cran/EpiModel")
Install by package version:
library("remotes")
install_version("EpiModel", "2.5.0")
Attach the package and use:
library("EpiModel")
Maintained by
Samuel Jenness
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2013-04-08
Latest Update: 2023-06-20
Description:
Tools for simulating mathematical models of infectious disease dynamics.
Epidemic model classes include deterministic compartmental models, stochastic
individual-contact models, and stochastic network models. Network models use the
robust statistical methods of exponential-family random graph models (ERGMs)
from the Statnet suite of software packages in R. Standard templates for epidemic
modeling include SI, SIR, and SIS disease types. EpiModel features an API for
extending these templates to address novel scientific research aims. Full
methods for EpiModel are detailed in Jenness et al. (2018, ).
How to cite:
Samuel Jenness (2013). EpiModel: Mathematical Modeling of Infectious Disease Dynamics. R package version 2.5.0, https://cran.r-project.org/web/packages/EpiModel. Accessed 02 Feb. 2025.
Previous versions and publish date:
0.25 (2013-04-08 17:44), 0.95 (2014-01-23 20:29), 1.0.1 (2014-07-29 07:38), 1.0.2 (2014-08-30 09:19), 1.0 (2014-06-09 07:47), 1.1.1 (2014-11-02 09:17), 1.1.2 (2014-12-01 20:38), 1.1.3 (2015-01-18 06:43), 1.1.4 (2015-04-12 09:05), 1.1.6 (2015-05-16 09:44), 1.1 (2014-10-01 07:21), 1.2.0 (2015-07-08 00:42), 1.2.1 (2015-07-24 06:50), 1.2.2 (2015-11-03 11:59), 1.2.4 (2016-02-01 16:35), 1.2.5 (2016-03-09 23:12), 1.2.6 (2016-05-24 18:50), 1.2.7 (2016-07-30 00:34), 1.2.8 (2016-12-16 22:51), 1.3.0 (2017-03-13 21:14), 1.5.0 (2017-06-01 05:47), 1.6.0 (2018-01-24 22:22), 1.6.1 (2018-01-25 15:45), 1.6.5 (2018-04-10 10:31), 1.7.0 (2018-11-21 18:40), 1.7.2 (2018-12-18 17:40), 1.7.3 (2019-08-29 19:10), 1.7.5 (2020-01-07 22:50), 1.8.0 (2020-05-08 17:10), 2.0.2 (2020-08-05 11:52), 2.0.3 (2020-11-09 22:40), 2.0.5 (2021-05-15 20:50), 2.1.0 (2021-06-25 22:20), 2.2.0 (2021-11-09 22:20), 2.2.1 (2022-02-02 09:50), 2.3.0 (2022-07-19 05:30), 2.3.1 (2022-10-01 14:00), 2.3.2 (2023-02-17 00:30), 2.4.0 (2023-06-20 20:20)
Other packages that cited EpiModel R package
View EpiModel citation profile
Other R packages that EpiModel depends,
imports, suggests or enhances
Complete documentation for EpiModel
Functions, R codes and Examples using
the EpiModel R package
Some associated functions: EpiModel-package . InitErgmTerm.absdiffby . InitErgmTerm.absdiffnodemix . InitErgmTerm.fuzzynodematch . add_vertices . apportion_lr . arrivals.2g.net . arrivals.icm.bip . arrivals.icm . arrivals.net . as.data.frame.dcm . as.data.frame.icm . as.data.frame.netdx . as.network.transmat . as.phylo.transmat . auto_update_attr . brewer_ramp . check_attr_lengths . check_degdist_bal . color_tea . common_updater . comp_plot . control.dcm . control.icm . control.net . copy_datattr_to_nwattr . copy_nwattr_to_datattr . create_dat_object . create_scenario_list . crosscheck.dcm . crosscheck.icm . crosscheck.net . dcm.mods . dcm . deleteAttr . delete_attr . delete_vertices . departures.2g.net . departures.icm.bip . departures.icm . departures.net . discord_edgelist . dissolution_coefs . edgelist_censor . edges_correct . epi_trackers . epiweb . format_param . generate_random_params . geom_bands . get_args . get_attr_history . get_attr_prop . get_cumulative_edgelist . get_cumulative_edgelists_df . get_current_timestep . get_degree . get_edgelist . get_formula_term_attr . get_network . get_network_term_attr . get_nwparam . get_nwstats . get_param_set . get_partners . get_sims . get_transmat . get_vertex_attribute . icm . idgroup . increment_timestep . infection.2g.net . infection.icm.bip . infection.icm . infection.net . init.dcm . init.icm . init.net . init_status.icm . init_status.net . init_tergmLite . initialize.icm . initialize.net . is_active_posit_ids . is_active_unique_ids . make_stats_table . mcat . merge.icm . merge.netsim . modules.icm . modules.net . mutate_epi . net-accessor . netdx . netest . netsim . netsim_cond_msg . networkLite . networkLitemethods . network_initialize . nwupdate.net . param.dcm . param.icm . param.net . param.net_from_table . param_random . plot.dcm . plot.icm . plot.netdx . plot.netsim . plot.transmat . prevalence.icm.bip . prevalence.icm . prevalence.net . print.netdx . print_nwstats_table . process_out.net . record_attr_history . record_raw_object . recovery.2g.net . recovery.icm.bip . recovery.icm . recovery.net . resim_nets . saveout.dcm . saveout.icm . saveout.net . set_current_timestep . set_transmat . set_vertex_attribute . sim_nets_t1 . ssample . summary.dcm . summary.icm . summary.netest . summary.netsim . tedgelist_to_toggles . test_icm . test_net . toggles_to_diss_stats . trim_netest . truncate_sim . unique_id-tools . update_cumulative_edgelist . update_dissolution . update_list . update_params . update_unique_ids . use_scenario . verbose.dcm . verbose.icm . verbose.net .
Some associated R codes: EpiModel-package.R . ErgmTerms.R . RcppExports.R . as.data.frame.R . dcm.R . dcm.inputs.R . dcm.mods.R . dendo.R . el_cuml.R . get.R . icm.R . icm.inputs.R . icm.mod.init.R . icm.mod.status.R . icm.mod.vital.R . icm.utils.R . initialize.R . merge.R . modules.icm.R . modules.net.R . net.accessor.R . net.helpers.R . net.inputs.R . net.mod.infection.R . net.mod.init.R . net.mod.nwupdate.R . net.mod.prevalence.R . net.mod.recovery.R . net.mod.simnet.R . net.mod.trackers.R . net.mod.updater.R . net.mod.vital.R . net.record.R . net.scenarios.R . net.utils.R . netdx.R . netest.R . netsim.R . netsim_checkpoint.R . network.R . networkLite.R . plot.R . print.R . saveout.R . shiny.R . summary.R . test.R . update.R . utils.R . verbose.R . Full EpiModel package functions and examples
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