hhh4contacts v0.13.1
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Age-Structured Spatio-Temporal Models for Infectious Disease Counts
Meyer and Held (2017) <doi:10.1093/biostatistics/kxw051> present an
age-structured spatio-temporal model for infectious disease counts. The
approach is illustrated in a case study on norovirus gastroenteritis in
Berlin, 2011-2015, by age group, city district and week, using additional
contact data from the POLYMOD survey. This package contains the data and
code to reproduce the results from the paper, see 'demo("hhh4contacts")'.
Functions in hhh4contacts
| Name | Description | |
| contactmatrix | POLYMOD Contact Matrices for Germany | |
| plotHHH4_maps_groups | Plot Mean Components of a hhh4 Fit by District Averaged Over Time | |
| stratum | Extract Strata | |
| plotHHH4_season_groups | Plot Seasonality of a hhh4 Fit by Group | |
| stationary | Stationary Distribution of a Transition Matrix | |
| pop2011 | Berlin and German Population by Age Group, 2011 | |
| powerC | Exponentiate a Matrix via Eigendecomposition | |
| plotHHH4_fitted_groups | Plot Mean Components of a hhh4 Fit by Group | |
| plotC | Generate an Image of a Contact Matrix | |
| stsplothook | Hook functions for stsplot_time1 | |
| subset.array | Subset an Array in one Dimension | |
| dssAggregate | Compute the DSS on Aggregated Predictions and Observations | |
| aggregateC | Aggregate a Contact Matrix | |
| addGroups2WFUN | Group-Dependent Parametric Weights | |
| fitC | Estimate the Power of the Contact Matrix in a "hhh4" Model | |
| expandC | Expand the Contact Matrix over Regions | |
| adaptP | Adapt a Transition Matrix to a Specific Stationary Distribution | |
| C2pop | Adapt a Contact Matrix to Population Fractions | |
| noroBE | Create "sts" Objects from the Berlin Norovirus Data | |
| aggregateCountsArray | Aggregate an Array of Counts wrt One Dimension (Stratum) | |
| No Results! | ||
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Details
| Date | 2020-03-20 |
| License | GPL-2 |
| LazyData | yes |
| RoxygenNote | 7.1.0 |
| NeedsCompilation | no |
| Packaged | 2020-03-20 15:19:46 UTC; smeyer |
| Repository | CRAN |
| Date/Publication | 2020-03-20 16:00:03 UTC |
| depends | graphics , grDevices , methods , R (>= 3.2.0) , stats , surveillance (>= 1.14.0) , utils |
| suggests | gridExtra , lattice , MASS , numDeriv , scales |
| Contributors | Leonhard Held |
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