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rts2

Real-Time Disease Surveillance

v0.10.2 · Feb 2, 2026 · CC BY-SA 4.0

Description

Supports modelling real-time case data to facilitate the real-time surveillance of infectious diseases and other point phenomena. The package provides automated computational grid generation over an area of interest with methods to map covariates between geographies, model fitting including spatially aggregated case counts, and predictions and visualisation. Both Bayesian and maximum likelihood methods are provided. Log-Gaussian Cox Processes are described by Diggle et al. (2013) <doi:10.1214/13-STS441> and we provide both the low-rank approximation for Gaussian processes described by Solin and Särkkä (2020) <doi:10.1007/s11222-019-09886-w> and Riutort-Mayol et al (2023) <doi:10.1007/s11222-022-10167-2> and the nearest neighbour Gaussian process described by Datta et al (2016) <doi:10.1080/01621459.2015.1044091>.

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r-devel-linux-x86_64-fedora-clang OK
r-devel-linux-x86_64-fedora-gcc OK
r-devel-macos-arm64 OK
r-devel-windows-x86_64 OK
r-oldrel-macos-arm64 NOTE
r-oldrel-macos-x86_64 NOTE
r-oldrel-windows-x86_64 NOTE
r-patched-linux-x86_64 OK
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r-release-macos-arm64 OK
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r-release-windows-x86_64 OK
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OK r-devel-linux-x86_64-debian-gcc

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OK r-devel-linux-x86_64-fedora-clang

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OK r-devel-linux-x86_64-fedora-gcc

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OK r-devel-macos-arm64

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OK r-devel-windows-x86_64

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NOTE r-oldrel-macos-arm64

for GNU extensions in Makefiles

GNU make is a SystemRequirements.
NOTE r-oldrel-macos-arm64

installed package size

  installed size is 110.6Mb
  sub-directories of 1Mb or more:
    data    1.5Mb
    libs  108.6Mb
NOTE r-oldrel-macos-x86_64

for GNU extensions in Makefiles

GNU make is a SystemRequirements.
NOTE r-oldrel-macos-x86_64

installed package size

  installed size is 113.8Mb
  sub-directories of 1Mb or more:
    data    1.5Mb
    libs  111.7Mb
NOTE r-oldrel-windows-x86_64

for GNU extensions in Makefiles

GNU make is a SystemRequirements.
NOTE r-oldrel-windows-x86_64

installed package size

  installed size is  5.9Mb
  sub-directories of 1Mb or more:
    data   1.5Mb
    libs   3.8Mb
OK r-patched-linux-x86_64

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OK r-release-linux-x86_64

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OK r-release-macos-arm64

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OK r-release-macos-x86_64

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OK r-release-windows-x86_64

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Check History

NOTE 11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 9, 2026
NOTE r-oldrel-macos-arm64

installed package size

  installed size is 110.6Mb
  sub-directories of 1Mb or more:
    data    1.5Mb
    libs  108.6Mb
NOTE r-oldrel-macos-x86_64

installed package size

  installed size is 113.8Mb
  sub-directories of 1Mb or more:
    data    1.5Mb
    libs  111.7Mb
NOTE r-oldrel-windows-x86_64

installed package size

  installed size is  5.9Mb
  sub-directories of 1Mb or more:
    data   1.5Mb
    libs   3.8Mb

Dependency Network

Dependencies Reverse dependencies sf R6 Rcpp RcppParallel rstan rstantools lubridate stars raster glmmrBase quadprog spdep rts2

Version History

new 0.10.2 Mar 9, 2026