| barabasiAlbert | Function to generate a Barabasi-Albert network |
| black | Black's measles seroprevalence data. |
| burnett | Burnett's Parasitoid-Host data. |
| ccs | UK measles CCS data. |
| chabaudi | Daily measures of malaria infected mice. |
| cholera | Dacca cholera death data. |
| coyne | Edition 1 Gradient-function for Coyne et al's rabies model |
| coyne2 | Edition 2 Gradient-function for Coyne et al's rabies model |
| cspring | Colorado Springs network |
| dalziel | Measles incidence across 40 US cities |
| ebola | Sierra-Leone Ebola 2015 data. |
| euthamia | Euthamia graminifolia rust data. |
| ferrari | Ferrari et al. 2005 outbreak data. |
| filipendula | Filipendula rust data. |
| fiv | FIV infection in cats. |
| flu | Boarding school influenza data. |
| gillespie | Gillespie exact algorithm |
| gonnet | De et al. 2004 gonorrhea contact matrix |
| gravity | A function to calculate the matrix of gravity coupling based... |
| gypsymoth | Defoliated by gypsy moth each in northeast US 1975-2002. |
| icelandflu | Monthly incidence of influenza-like illness in Iceland... |
| integrandpc | Auxiliary function used by llik.pc |
| jacobian | A Jacobian matrix calculator |
| leslie | A function to calculate asymptotic growth, sensitivity and... |
| litter | Bordetella bronchiseptica in rabbit kittens. |
| llik.cb | Negative log-likelihood function for the chain-binomial model |
| llik.pc | Function to estimate parameters for the piecewise-constant... |
| m4494 | Measles in England and Wales 1944-1994. |
| magono | Massachusetts gonorrhea data. |
| may.app | Launch a shiny-app simulating May's Parasitoid-host Model... |
| meas | Bi-weekly measles incidence in London from 1944-65. |
| nbmod | The Nicholson-Bailey model |
| nbspat.app | Launch a shiny-app simulating the spatially-extended... |
| nextgenR0 | Next generation matrix R0 calculator |
| niamey | Weekly measles incidence from 2003-04 in Niamey, Niger. |
| niamey_daily | Day of appearance of each measles case from 2003-04 outbreak... |
| orv.app | Launch a shiny-app to study outbreak-response vaccination... |
| pagiard | Weekly incidence of giardia in Pennsylvania between 2006 and... |
| paili | Weekly deaths from Influenza-like illness in Pennsylvania... |
| palymes | Weekly incidence of Lymes disease in Pennsylvania between... |
| pameasle | Weekly incidence of measles in Pennsylvania between 1928 and... |
| pdv | Cumulative death count of harbor seals from CDV. |
| pertcop | Weekly whooping cough incidence from 1900-1937 in Copenhagen,... |
| peru | Rubella in Peru data. |
| plot.cm | Function to plot an object of class CM |
| plot.netSir | Function to plot a netSir object |
| polymod | POLYMOD contact-rate data by Age. |
| r0fun | Function to calculate R0 from a contact matrix |
| rabbit | Rabbit _Bordetella bronchiseptica_ data. |
| rabies | Raccoon rabies data. |
| retrospec | Function to predict efficacy of outbreak-response vaccination... |
| ringlattice | Function to generate a ring lattice |
| ross.app | Launch a shiny-app simulating a Ross-Macdonald model |
| seir.app | Launch a shiny-app simulating the seasonal SEIR model |
| seirmod | Gradient-function for the SEIR model |
| seirmod2 | Gradient-function for the forced SEIR model |
| seirs.app | Launch a shiny-app simulating the SEIRS model |
| silene | Antler smut on wild campion. |
| sim.cb | Function to simulate the chain-binomial model |
| sirAgemod | Gradient-function for the age-structured SIR model with... |
| sir.app | Launch a shiny-app simulating the SIR model |
| sirChainmod | Gradient-function for the chain-SIR model |
| sirmod | Gradient-function for the SIR model |
| sirNetmod | Function to simulate an epidemic on a network |
| sirSpatmod | Gradient function for a spatially-extended SIR model |
| sirvmod | Gradient-function for the SIR model with outbreak-response... |
| sirwmod | Gradient-function for the SIRWS model |
| summary.cm | Function to calculate the degree distribution for an object... |
| summary.netSir | Function to summarize a netSir object |
| tau | Gillespie tau-leap algorithm |
| tsir.app | Launch a shiny-app simulating TSIR model |
| tsirLlyap | Function to calculate the local Lyapunov exponents for the... |
| tsirLyap | Function to do Lyapunov exponent calculations from a TSIR... |
| tsirSim | Function to simulate the stochastic TSIR |
| tsirSim2 | Function to simulate the seasonally-forced TSIR |
| tsirSpat | Function to simulate the spatially-extended seasonally-forced... |
| twostrain | Gradient-function for the two-strain SIR model |
| twostrain.app | Launch a shiny-app simulating a two-strain SIR model |
| tydiphtheria | Weekly incidence of diphtheria in Philadelphia between 1914... |
| tymeasles | Weekly incidence of measles in Philadelphia between 1914 and... |
| tyscarlet | Weekly incidence of scarlet fever in Philadelphia between... |
| tywhooping | Weekly incidence of whooping cough in Philadelphia between... |
| us | 2005 US Life table. |
| usflu | US 1975/76 ILI data. |
| variants | US SARS-CoV-2 variant data. |
| waller | Rabies month of first appearance across Connecticut. |
| wattsStrogatz | Function to generate a Watts-Strogatz network |
