epiCo
epiCo provides functions for clustering, regression, now casting, and sup reporting analyses vector-borne diseases in Colombia.
R from common health information systems.
Installation
You can install the development version of epiCo from GitHub with:
# install.packages("remotes")
remotes::install_github("epiverse-trace/epiCo")Example
These examples illustrate some of the current functionalities:
library(epiCo)
library(incidence)
library(qcc)
## Occupation labels
isco_codes <- c(7321, 2411, 4121, 3439, 3431)
isco_labels <- get_occupationLabels(isco_codes, output_level = "unit_label")
## Incidence rates estimation
data("dengue_orinoquia_2017")
incidence_object <- incidence(dengue_orinoquia_2017$FEC_NOT, groups = dengue_orinoquia_2017$COD_MUN_O, interval = "1 week")
incidenceRate_object <- estimate_incidenceRate(incidence_object, level = 2)
## Outbreaks detection
# EWMA method
incidence_arauca <- incidence_object$counts[,"81001"]
outbreaks_object <- detect_outbreaks_EWMA(incidence_arauca, lambda = 0.2, nsigmas = 2)
Development
Lifecycle
This package is currently a concept, as defined by the RECON software lifecycle. This means that essential features and mechanisms are still being developed, and the package is not ready for use outside of the development team.
Contributions
Contributions are welcome via pull requests.
Contributors to the project include:
- Juan D. Umaña (author)
- Juan Montenegro (author)
- Julian Otero (author)
- Samuel Torres (contributor)
- Mauricio Santos-Vega (author)
Code of Conduct
Please note that the epiCo project is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.