https://github.com/weinbergerlab/excessili

https://github.com/weinbergerlab/excessili

Last synced: 14 days ago
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• Host: GitHub
• URL: https://github.com/weinbergerlab/excessili
• Owner: weinbergerlab
• License: other
• Created: 2020-03-24T03:22:49.000Z (almost 5 years ago)
• Default Branch: master
• Last Pushed: 2021-05-27T20:32:01.000Z (over 3 years ago)
• Last Synced: 2024-11-05T10:32:28.713Z (2 months ago)
• Language: R
• Size: 43.2 MB
• Stars: 1
• Watchers: 4
• Forks: 2
• Open Issues: 7
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        
# ExcessILI

ExcessILI facilitates formatting line list data from syndromic surveillance

datasets into time series, and enables analysis of these data to detect

increases in reporting above the seasonal baseline. For US data, there is an

option to automatically adjust the data for state-specific flu activity (using

data from [NREVSS](https://www.cdc.gov/surveillance/nrevss/index.html) and/or

state-specific RSV activity (based on Google search volume). The user can

either start with line list data, or formatted time series data. An

[rshiny](https://shiny.rstudio.com/) app is provided to examine data products.

# Installation

```r

# Currently, ExcessILI is not availble on CRAN

# install.packages("ExcessILI")

# Install development version from GitHub. This requires that the 'devtools'

# package be installed.

if (!require("devtools")) {

  install.packages("devtools")

}

devtools::install_github("weinbergerlab/ExcessILI")

```

# Usage

- To see how to go from line list data to an interactive app, see

  `vignette("ESSENCE")`

- For an example of how to use the analysis functions with CDC ILINet

  data, see `vignette("ILINet")`.

- For preliminary results on pneumonia and influenza mortality increases 

  above the seasonal baseline, visit `vignette("PImortality")`

# Resources

- [Ask a question](mailto:[email protected]?subject=ExcessILI)

- [Open an issue](https://github.com/weinbergerlab/ExcessILI/issues) (GitHub

  issues for bug reports, feature requests)