Package: hhh4ZI 0.3.2

Sebastian Meyer

hhh4ZI: Zero-Inflated Endemic-Epidemic Count Time Series

Extending 'surveillance::hhh4()' for zero-inflated infectious disease counts as described in Lu and Meyer (2023) <doi:10.1002/bimj.202100408>. This package is a partial fork of 'surveillance' and intended as a proof of concept for this model extension. It will be merged with other extensions in the future.

Authors:Junyi Lu [aut], Sebastian Meyer [cre, ctb, cph, ths], Michaela Paul [cph], R Core Team [cph]

hhh4ZI_0.3.2.tar.gz
hhh4ZI_0.3.2.zip(r-4.5)hhh4ZI_0.3.2.zip(r-4.4)hhh4ZI_0.3.2.zip(r-4.3)
hhh4ZI_0.3.2.tgz(r-4.4-any)hhh4ZI_0.3.2.tgz(r-4.3-any)
hhh4ZI_0.3.2.tar.gz(r-4.5-noble)hhh4ZI_0.3.2.tar.gz(r-4.4-noble)
hhh4ZI_0.3.2.tgz(r-4.4-emscripten)hhh4ZI_0.3.2.tgz(r-4.3-emscripten)
hhh4ZI.pdf |hhh4ZI.html✨
hhh4ZI/json (API)

# Install 'hhh4ZI' in R:
install.packages('hhh4ZI', repos = c('https://ee-lib.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/junyi-l/hhh4zi/issues

Datasets:
  • Dosis1 - MMR coverage levels in the 16 states of Germany
  • Dosis2 - MMR coverage levels in the 16 states of Germany
  • TotalKids - MMR coverage levels in the 16 states of Germany
  • VacPass - MMR coverage levels in the 16 states of Germany
  • measles - Measles in the 16 states of Germany

On CRAN:

2.18 score 3 stars 3 scripts 9 exports 15 dependencies

Last updated 2 months agofrom:73cfa152b1. Checks:OK: 3 NOTE: 4. Indexed: no.

TargetResultDate
Doc / VignettesOKDec 07 2024
R-4.5-winNOTEDec 07 2024
R-4.5-linuxNOTEDec 07 2024
R-4.4-winNOTEDec 07 2024
R-4.4-macNOTEDec 07 2024
R-4.3-winOKDec 07 2024
R-4.3-macOKDec 07 2024

Exports:hhh4ZIoneStepAheadplotHHH4ZI_fittedplotHHH4ZI_fitted1plotHHH4ZI_mapsplotHHH4ZI_maxEVplotHHH4ZI_neweightsplotHHH4ZI_riplotHHH4ZI_season

Dependencies:deldirlatticeMASSMatrixnlmepolyclippolyCubspspatstat.dataspatstat.geomspatstat.univarspatstat.utilssurveillanceVGAMxtable

Readme and manuals

Help Manual

Help pageTopics
MMR coverage levels in the 16 states of GermanyCoverage Dosis1 Dosis2 TotalKids VacPass
Fitting zero-inflated HHH Models with Random Effects and Neighbourhood Structurehhh4ZI
Measles in the 16 states of Germanymeasles
Predictive Model Assessment for hhh4ZI Modelsconfint.oneStepAhead_hhh4ZI oneStepAhead oneStepAhead.hhh4 oneStepAhead.hhh4ZI plot.oneStepAhead_hhh4ZI quantile.oneStepAhead_hhh4ZI
Non-Randomized Version of the PIT Histogram (for Count Data)pit.hhh4ZI pit.oneStepAhead_hhh4ZI
Plots for Fitted 'hhh4ZI' Modelsplot.hhh4ZI plotHHH4ZI_fitted plotHHH4ZI_fitted1 plotHHH4ZI_maps plotHHH4ZI_maxEV plotHHH4ZI_neweights plotHHH4ZI_ri plotHHH4ZI_season
Proper Scoring Rules for 'hhh4ZI' Modelsscores scores.hhh4ZI scores.oneStepAhead_hhh4ZI
Simulate 'hhh4ZI' Count Time Seriessimulate.hhh4ZI
Refit a 'hhh4ZI' Modelupdate.hhh4ZI
Refit a HHH4 model with a ZI Componentupgrade.hhh4