Man pages for EpiModel
Mathematical Modeling of Infectious Disease Dynamics
| as.data.frame.dcm | Extract Model Data for Deterministic Compartmental Models |
| as.data.frame.icm | Extract Model Data for Stochastic Models |
| as.network.transmat | Converts transmat infection tree into a network object |
| as.phylo.transmat | Convert transmat infection tree into a phylo object |
| bipvals | Vertex Attributes for Bipartite Network |
| births.icm | Births: icm Module |
| births.net | Births: netsim Module |
| brewer_ramp | RColorBrewer Color Ramp for EpiModel Plots |
| calc_eql | Calculate Equilibrium for Infection Prevalence |
| check_bip_degdist | Check Degree Distribution for Bipartite Target Statistics |
| color_tea | Creates a TEA Variable for Infection Status for 'ndtv'... |
| comp_plot | Plot Compartment Diagram for Epidemic Models |
| control.dcm | Control Settings for Deterministic Compartmental Models |
| control.icm | Control Settings for Stochastic Individual Contact Models |
| control.net | Control Settings for Stochastic Network Models |
| copy_toall_attr | Copies Vertex Attributes in Formation Formula to attr List |
| crosscheck.dcm | Cross Checking of Inputs for Deterministic Compartmental... |
| crosscheck.icm | Cross Checking of Inputs for Stochastic Individual Contact... |
| crosscheck.net | Cross Checking of Inputs for Stochastic Network Models |
| dcm | Deterministic Compartmental Models |
| dcm.mods | Deterministic Compartmental Model Functions |
| deaths.icm | Deaths: icm Module |
| deaths.net | Deaths: netsim Module |
| deleteAttr | Delete Elements from Attribute List |
| discord_edgelist | Discordant Edgelist from NetworkDynamic Object |
| dissolution_coefs | Dissolution Coefficients for Stochastic Network Models |
| edgelist_censor | Table of Edge Censoring |
| edgelist_meanage | Mean Age of Partnerships over Time |
| edges_correct | Adjustment for the Edges Coefficient with Changing Network... |
| EpiModel-package | Mathematical Modeling of Infectious Disease Dynamics |
| epiweb | EpiModel Web |
| geom_bands | ggplot2 geom for Quantile Bands |
| get_attr_prop | Proportional Table of Vertex Attributes |
| get_degree | Get Individual Degree from Network or Edgelist |
| get_formula_terms | Outputs Formula Terms into a Character Vector |
| get_network | Extract networkDynamic Object from Network Epidemic Model |
| get_nwparam | Extract Network Model Parameters |
| get_nwstats | Extract Network Statistics from Network Epidemic Model |
| get_prev.icm | Get Epidemic Output from icm Model |
| get_prev.net | Get Epidemic Output from netsim Model |
| get_sims | Extract Network Simulations |
| get_transmat | Extract Transmissions Matrix from Network Epidemic Model |
| icm | Stochastic Individual Contact Models |
| idmode | Mode Numbers for Bipartite Network |
| infection.icm | Primary Infection Module for icm |
| infection.net | Primary Infection Module for netsim |
| init.dcm | Initial Conditions for Deterministic Compartmental Models |
| initialize.icm | Initialization: icm Module |
| initialize.net | Initialization: netsim Module |
| init.icm | Initial Conditions for Stochastic Individual Contact Models |
| init.net | Initial Conditions for Stochastic Network Models |
| init_pids | Persistent ID Initialization |
| init_status.icm | Disease Status Initialization Module for icm |
| init_status.net | Disease Status Initialization Module for netsim |
| mcat | Write Out Test Progress to Console |
| merge.icm | Merge Data across Stochastic Individual Contact Model... |
| merge.netsim | Merge Model Simulations Across netsim Objects |
| modeids | ID Numbers for Bipartite Network |
| modules.icm | Modules for Stochastic Individual Contact Models |
| modules.net | Modules for Stochastic Network Models |
| mutate_epi | Add New Epidemiology Variables |
| netdx | Dynamic Network Model Diagnostics |
| netest | Dynamic Network Model Estimation |
| netsim | Stochastic Network Models |
| param.dcm | Epidemic Parameters for Deterministic Compartmental Models |
| param.icm | Epidemic Parameters for Stochastic Individual Contact Models |
| param.net | Epidemic Parameters for Stochastic Network Models |
| plot.dcm | Plot Data from a Deterministic Compartmental Epidemic Model |
| plot.icm | Plot Data from a Stochastic Individual Contact Epidemic Model |
| plot.netdx | Plot Dynamic Network Model Diagnostics |
| plot.netsim | Plot Data from a Stochastic Network Epidemic Model |
| plot.transmat | Plot transmat infection tree in one of several styles |
| recovery.icm | Recovery: icm Module |
| recovery.net | Recovery: netsim Module |
| resim_nets | Resimulate Dynamic Network at Time 2+ |
| saveout.dcm | Save dcm Data to Output List Format |
| saveout.icm | Save icm Data to Output List Format |
| saveout.net | Save netsim Data to Output List Format |
| sim_nets | Simulate Dynamic Network at Time 1 |
| split_bip | Update Attribute Values for a Bipartite Network |
| ssample | Stable Sampling Function |
| summary.dcm | Summary Model Statistics |
| summary.icm | Summary Model Statistics |
| summary.netest | Summary for Network Model Fit |
| summary.netsim | Summary Model Statistics |
| test_icm | Test the Model Output from a Stochastic Individual Contact... |
| test_net | Test the Model Output from a Network Model |
| transco | Obtain Transparent Colors |
| truncate_sim | Truncate Simulation Time Series |
| update_dissolution | Adjust Dissolution Component of Network Model Fit |
| update_nwattr | Updates Vertex Attributes for Incoming Vertices |
| verbose.dcm | Progress Print Module for Deterministic Compartmental Models |
| verbose.icm | Progress Print Module for Stochastic Individual Contact... |
| verbose.net | Progress Print Module for Stochastic Network Models |
