You can not select more than 25 topics
Topics must start with a letter or number, can include dashes ('-') and can be up to 35 characters long.
102 lines
3.4 KiB
102 lines
3.4 KiB
5 years ago
|
|
||
|
|
[](https://cran.r-project.org/package=cdcfluview)
|
||
|
|
[](https://travis-ci.org/hrbrmstr/cdcfluview)
|
||
|
|
[](https://codecov.io/github/hrbrmstr/cdcfluview?branch=master)
|
||
|
|
|
||
|
|
I M P O R T A N T
|
||
|
|
=================
|
||
|
|
|
||
|
|
The CDC migrated to a new non-Flash portal and back-end APIs changed.
|
||
|
|
This is a complete reimagining of the package and — as such — all your
|
||
|
|
code is going to break. Please use GitHub issues to identify previous
|
||
|
|
API functionality you would like ported over. There’s a [release
|
||
|
|
candidate for
|
||
|
|
0.5.2](https://github.com/hrbrmstr/cdcfluview/releases/tag/v0.5.2) which
|
||
|
|
uses the old API but it likely to break in the near future given the
|
||
|
|
changes to the hidden API. You can do what with
|
||
|
|
`devtools::install_github("hrbrmstr/cdcfluview", ref="58c172b")`.
|
||
|
|
|
||
|
|
All folks providing feedback, code or suggestions will be added to the
|
||
|
|
DESCRIPTION file. Please include how you would prefer to be cited in any
|
||
|
|
issues you file.
|
||
|
|
|
||
|
|
If there’s a particular data set from
|
||
|
|
<https://www.cdc.gov/flu/weekly/fluviewinteractive.htm> that you want
|
||
|
|
and that isn’t in the package, please file it as an issue and be as
|
||
|
|
specific as you can (screen shot if possible).
|
||
|
|
|
||
|
|
:mask: cdcfluview
|
||
|
|
=================
|
||
|
|
|
||
|
|
Retrieve U.S. Flu Season Data from the CDC FluView Portal
|
||
|
|
|
||
|
|
Description
|
||
|
|
-----------
|
||
|
|
|
||
|
|
The U.S. Centers for Disease Control (CDC) maintains a portal
|
||
|
|
<http://gis.cdc.gov/grasp/fluview/fluportaldashboard.html> for accessing
|
||
|
|
state, regional and national influenza statistics as well as Mortality
|
||
|
|
Surveillance Data. The Flash interface makes it difficult and
|
||
|
|
time-consuming to select and retrieve influenza data. This package
|
||
|
|
provides functions to access the data provided by the portal’s
|
||
|
|
underlying API.
|
||
|
|
|
||
|
|
What’s Inside The Tin
|
||
|
|
---------------------
|
||
|
|
|
||
|
|
The following functions are implemented:
|
||
|
|
|
||
|
|
- `agd_ipt`: Age Group Distribution of Influenza Positive Tests
|
||
|
|
Reported by Public Health Laboratories
|
||
|
|
- `cdcfluview`: Tools to Work with the ‘CDC’ ‘FluView’ ‘API’
|
||
|
|
- `cdc_coverage_map`: Retrieve CDC U.S. Coverage Map
|
||
|
|
- `geographic_spread`: State and Territorial Epidemiologists Reports
|
||
|
|
of Geographic Spread of Influenza
|
||
|
|
- `hospitalizations`: Laboratory-Confirmed Influenza Hospitalizations
|
||
|
|
- `ilinet`: Retrieve ILINet Surveillance Data
|
||
|
|
- `ili_weekly_activity_indicators`: Retrieve weekly state-level ILI
|
||
|
|
indicators per-state for a given season
|
||
|
|
- `pi_mortality`: Pneumonia and Influenza Mortality Surveillance
|
||
|
|
- `state_data_providers`: Retrieve metadat about U.S. State CDC
|
||
|
|
Provider Data
|
||
|
|
- `surveillance_areas`: Retrieve a list of valid sub-regions for each
|
||
|
|
surveillance area.
|
||
|
|
- `who_nrevss`: Retrieve WHO/NREVSS Surveillance Data
|
||
|
|
|
||
|
|
The following data sets are included:
|
||
|
|
|
||
|
|
- `hhs_regions` HHS Region Table (a data frame with 59 rows and 4
|
||
|
|
variables)
|
||
|
|
- `census_regions` Census Region Table (a data frame with 51 rows and
|
||
|
|
2 variables)
|
||
|
|
|
||
|
|
Installation
|
||
|
|
------------
|
||
|
|
|
||
|
|
``` r
|
||
|
|
devtools::install_github("hrbrmstr/cdcfluview")
|
||
|
|
```
|
||
|
|
|
||
|
|
Usage
|
||
|
|
-----
|
||
|
|
|
||
|
|
``` r
|
||
|
|
library(cdcfluview)
|
||
|
|
|
||
|
|
# current verison
|
||
|
|
packageVersion("cdcfluview")
|
||
|
|
```
|
||
|
|
|
||
|
|
## [1] '0.7.0'
|
||
|
|
|
||
|
|
### EXAMPLES COMING SOON
|
||
|
|
|
||
|
|
Code of Conduct
|
||
|
|
---------------
|
||
|
|
|
||
|
|
Please note that this project is released with a [Contributor Code of
|
||
|
|
Conduct](CONDUCT.md). By participating in this project you agree to
|
||
|
|
abide by its terms.
|