Mathematical Modeling of Infectious Disease Dynamics


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Documentation for package ‘EpiModel’ version 1.7.2

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EpiModel-package Mathematical Modeling of Infectious Disease Dynamics
apportion_lr Apportion Least-Remainder Method
as.data.frame.dcm Extract Model Data for Deterministic Compartmental Models
as.data.frame.icm Extract Model Data for Stochastic Models
as.data.frame.netdx Extract Timed Edgelists netdx Objects
as.data.frame.netsim 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
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' Animations
comp_plot Plot Compartment Diagram for Epidemic Models
comp_plot.dcm Plot Compartment Diagram for Epidemic Models
comp_plot.icm Plot Compartment Diagram for Epidemic Models
comp_plot.netsim 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
dcm Deterministic Compartmental Models
dissolution_coefs Dissolution Coefficients for Stochastic Network Models
edgelist_censor Table of Edge Censoring
EpiModel Mathematical Modeling of Infectious Disease Dynamics
epiweb EpiModel Web
geom_bands ggplot2 geom for Quantile Bands
get_args Get Arguments from EpiModel Parameterization Functions
get_degree Get Individual Degree from Network or Edgelist
get_formula_term_attr Outputs ERGM Formula Attributes into a Character Vector
get_network Extract networkDynamic and network Objects from Network Simulations
get_nwstats Extract Network Statistics from netsim or netdx Object
get_sims Extract Network Simulations
get_transmat Extract Transmissions Matrix from Network Epidemic Model
icm Stochastic Individual Contact Models
init.dcm Initial Conditions for Deterministic Compartmental Models
init.icm Initial Conditions for Stochastic Individual Contact Models
init.net Initial Conditions for Stochastic Network Models
InitErgmTerm.absdiffby Definition for absdiffby ERGM Term
InitErgmTerm.absdiffnodemix Definition for absdiffnodemix ERGM Term
is.transmat Extract Transmissions Matrix from Network Epidemic Model
merge.icm Merge Data across Stochastic Individual Contact Model Simulations
merge.netsim Merge Model Simulations Across netsim Objects
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
summary.dcm Summary Model Statistics
summary.icm Summary Model Statistics
summary.netsim Summary Model Statistics
transmat Extract Transmissions Matrix from Network Epidemic Model
truncate_sim Truncate Simulation Time Series
update_dissolution Adjust Dissolution Component of Network Model Fit