Package: epiCo 1.0.1.9000

Juan D. Umaña

epiCo: Statistical and Viz Tools for Vector-Borne Diseases in Colombia

Provides statistical and visualization tools for the analysis of demographic indicators, and spatio-temporal behavior and characterization of outbreaks of vector-borne diseases (VBDs) in Colombia. It implements travel times estimated in Bravo-Vega C., Santos-Vega M., & Cordovez J.M. (2022), and the endemic channel method (Bortman, M. (1999) <https://iris.paho.org/handle/10665.2/8562>).

Authors:Juan D. Umaña [aut, cre, cph], Juan Montenegro-Torres [aut], Julian Otero [aut], Hugo Gruson [ctb]

epiCo_1.0.1.9000.tar.gz
epiCo_1.0.1.9000.zip(r-4.7)epiCo_1.0.1.9000.zip(r-4.6)epiCo_1.0.1.9000.zip(r-4.5)
epiCo_1.0.1.9000.tgz(r-4.6-any)epiCo_1.0.1.9000.tgz(r-4.5-any)
epiCo_1.0.1.9000.tar.gz(r-4.7-any)epiCo_1.0.1.9000.tar.gz(r-4.6-any)
epiCo_1.0.1.9000.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
epiCo/json (API)

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

Bug tracker:https://github.com/epiverse-trace/epico/issues

Pkgdown/docs site:https://epiverse-trace.github.io

Datasets:

On CRAN:

Conda:

colombiadecision-supportdemographicsepiverseoutbreak-analysissdg-3spatio-temporal-analysisvector-borne-diseases

5.89 score 13 stars 10 scripts 246 downloads 11 exports 105 dependencies

Last updated from:39a45ef43c. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK179
source / vignettesOK201
linux-release-x86_64OK158
macos-release-arm64OK106
macos-oldrel-arm64OK137
windows-develOK117
windows-releaseOK123
windows-oldrelOK128
wasm-releaseOK155

Exports:age_riskdescribe_ethnicitydescribe_occupationendemic_channelepi_calendargeometric_meangeometric_sdincidence_ratemorans_indexneighborhoodspopulation_pyramid

Dependencies:aweekbase64encbootbslibcachemclassclassIntclicommonmarkcpp11crosstalkcurlDBIdeldirdigestdplyre1071evaluatefarverfastmapfontawesomefsgenericsggfittextggforceggplot2ggraphggrepelgluegraphlayoutsgridExtragridtextgtablehighrhtmltoolshtmlwidgetsigraphincidenceisobandjpegjquerylibjsonliteKernSmoothknitrlabelinglatticelazyevalleafletleaflet.providerslifecyclelitedownlubridatemagrittrmarkdownMASSMatrixmemoisemimepillarpkgconfigpngpolyclipproxypurrrR6rappdirsrasterRColorBrewerRcppRcppArmadillorlangrmarkdowns2S7sassscalessfshadesspspDataspdepstringistringrsvglitesystemfontsterratextshapingtibbletidygraphtidyrtidyselecttimechangetinytextreemapifytweenrunitsutf8vctrsviridisviridisLitewithrwkxfunxml2yaml

Building an Endemic Channel with epiCo
1. What is an endemic channel? | The central tendency measure (CTM) | The upper and lower limits | 2. Historical data needed to build an endemic channel | Historic incidence from the line list or SIVIGILA data | Setting up the data from incidence information | 3. Using epiCo's endemic_channel function | Example | 4. Interpretation and communication of results
Rendered fromendemic_channel.Rmdusingknitr::rmarkdown

Last update: 2024-10-08
Started: 2023-10-13

Analyzing demographic data with epiCo
1. Navigating the Codification of the Political Administrative Division of Colombia (DIVIPOLA) | 2. Population pyramids | 3. Demographic variables | 4. Epidemiological data | 5. Estimation of incidence rates | 6. Estimation of risk by age group
Rendered fromdemographic_vignette.Rmdusingknitr::rmarkdown

Last update: 2024-10-07
Started: 2023-10-13

Spatiotemporal analyses with epiCo
1. Real travel times among Colombian municipalities | 2. Defining a neighborhood with epiCo | 3. epiCo's morans_index function | 4. Interpretation and communication of epiCo's morans_index results
Rendered fromspatiotemporal_vignette.Rmdusingknitr::rmarkdown

Last update: 2024-08-14
Started: 2023-10-13