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Add chatzilena et al as a replication example #464

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Oct 3, 2024
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6 changes: 3 additions & 3 deletions EpiAware/docs/Project.toml
Original file line number Diff line number Diff line change
Expand Up @@ -9,16 +9,16 @@ Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f"
Documenter = "e30172f5-a6a5-5a46-863b-614d45cd2de4"
DynamicPPL = "366bfd00-2699-11ea-058f-f148b4cae6d8"
EpiAware = "b2eeebe4-5992-4301-9193-7ebc9f62c855"
FFMPEG = "c87230d0-a227-11e9-1b43-d7ebe4e7570a"
LinearAlgebra = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"
LogExpFunctions = "2ab3a3ac-af41-5b50-aa03-7779005ae688"
OrdinaryDiffEq = "1dea7af3-3e70-54e6-95c3-0bf5283fa5ed"
PairPlots = "43a3c2be-4208-490b-832a-a21dcd55d7da"
Pluto = "c3e4b0f8-55cb-11ea-2926-15256bba5781"
PlutoStaticHTML = "359b1769-a58e-495b-9770-312e911026ad"
ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267"
SciMLSensitivity = "1ed8b502-d754-442c-8d5d-10ac956f44a1"
Statistics = "10745b16-79ce-11e8-11f9-7d13ad32a3b2"
StatsBase = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91"
StatsPlots = "f3b207a7-027a-5e70-b257-86293d7955fd"
TimeSeries = "9e3dc215-6440-5c97-bce1-76c03772f85e"
Transducers = "28d57a85-8fef-5791-bfe6-a80928e7c999"
Turing = "fce5fe82-541a-59a6-adf8-730c64b5f9a0"
TuringBenchmarking = "0db1332d-5c25-4deb-809f-459bc696f94f"
1 change: 1 addition & 0 deletions EpiAware/docs/make.jl
Original file line number Diff line number Diff line change
Expand Up @@ -15,6 +15,7 @@ include("build.jl")

build("getting-started")
build("getting-started/tutorials")
build("showcase/replications/chatzilena-2019")
build("showcase/replications/mishra-2020")

DocMeta.setdocmeta!(EpiAware, :DocTestSetup, :(using EpiAware); recursive = true)
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3 changes: 2 additions & 1 deletion EpiAware/docs/pages.jl
Original file line number Diff line number Diff line change
Expand Up @@ -26,7 +26,8 @@ getting_started_pages = Any[
showcase_pages = Any[
"Overview" => "showcase/index.md",
"Replication" => [
"On the derivation of the renewal equation from an age-dependent branching process: an epidemic modelling perspective" => "showcase/replications/mishra-2020/index.md"
"On the derivation of the renewal equation from an age-dependent branching process: an epidemic modelling perspective" => "showcase/replications/mishra-2020/index.md",
"Statistical inference for ODE-based infectious disease models" => "showcase/replications/chatzilena-2019/index.md"
]
]

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Original file line number Diff line number Diff line change
@@ -0,0 +1,8 @@
install.packages("outbreaks")
library(outbreaks)

# Get data

data <- outbreaks::influenza_england_1978_school
write.csv(data,
"EpiAware/docs/src/showcase/replications/chatzilena-2019/influenza_england_1978_school.csv2")
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