Estimate Global Clustering in Infectious Disease
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Documentation for package ‘IDSpatialStats’ version 0.4.0
Help Pages
| DengueSimR01 | Simulated dataset of dengue transmission with basic reproductive number of 1 |
| DengueSimR02 | Simulated dataset of dengue cases with basic reproductive number of 2 |
| DengueSimRepresentative | Simulated dataset of dengue cases with representative underlying population |
| est.transdist | Estimate transmission distance |
| est.transdist.bootstrap.ci | Bootstrap mean transmission distance values |
| est.transdist.temporal | Change in mean transmission distance over time |
| est.transdist.temporal.bootstrap.ci | Bootstrapped confidence intervals for the change in mean transmission distance over time |
| est.transdist.theta.weights | Estimate transmission distance theta values by replication |
| est.wt.matrix | Calculate the Infector-Infectee Wallinga-Teunis matrix |
| est.wt.matrix.weights | Estimate matrix of basic Wallinga-Teunis weights |
| get.cross.K | Cross type K function using homotypic and heterotypic case types |
| get.cross.PCF | Cross type Pair Correlation Function using homotypic and heterotypic case types |
| get.pi | Generalized version of 'get.pi' |
| get.pi.bootstrap | Bootstrap 'get.pi' values. |
| get.pi.ci | Calculate bootstrapped confidence intervals for 'get.pi' values. |
| get.pi.permute | get the null distribution of the 'get.pi' function |
| get.pi.typed | Optimized version of 'get.pi' for typed data. |
| get.pi.typed.bootstrap | runs bootstrapping on 'get.pi.typed' |
| get.pi.typed.permute | get the null distribution of the get.pi.typed function |
| get.tau | generalized version of 'get.tau' |
| get.tau.bootstrap | Bootstrap 'get.tau' values. |
| get.tau.ci | Bootstrap confidence interval for the 'get.tau' values |
| get.tau.permute | get the null distribution of the 'get.tau' function |
| get.tau.typed | Optimized version of 'get.tau' for typed data |
| get.tau.typed.bootstrap | runs bootstrapping for 'get.tau.typed' |
| get.tau.typed.permute | get the null distribution for the 'get.tau.typed' function |
| get.theta | Generalized version of 'get.theta' |
| get.theta.bootstrap | Bootstrap 'get.theta' values. |
| get.theta.ci | Calculate bootstrapped confidence intervals for 'get.theta' values. |
| get.theta.permute | get the null distribution of the 'get.theta' function |
| get.theta.typed | Optimized version of 'get.theta' for typed data. |
| get.theta.typed.bootstrap | runs bootstrapping on 'get.theta.typed' |
| get.theta.typed.permute | get the null distribution of the get.theta.typed function |
| get.transdist.theta | Get weights of transmission distance theta |
| sim.epidemic | Simulation of an epidemic in space and time |
| sim.plot | Plot output of simulated epidemic |