Subset of JHU daily state COVID-19 cases and deaths from 6 states
Source:R/reexports.R
cases_deaths_subset.RdThis data source of confirmed COVID-19 cases and deaths is based on reports made available by the Center for Systems Science and Engineering at Johns Hopkins University. This example data is a snapshot as of March 20, 2024, and ranges from March 1, 2020 to December 31, 2021. It is limited to California, Florida, Texas, New York, Georgia, and Pennsylvania.
It is used in the epiprocess growth rate and epi_slide vignettes.
Format
An object of class epi_df (inherits from tbl_df, tbl, data.frame) with 4026 rows and 6 columns.
Source
This object contains a modified part of the COVID-19 Data Repository by the Center for Systems Science and Engineering (CSSE) at Johns Hopkins University as republished in the COVIDcast Epidata API. This data set is licensed under the terms of the Creative Commons Attribution 4.0 International license by the Johns Hopkins University on behalf of its Center for Systems Science in Engineering. Copyright Johns Hopkins University 2020.
Modifications:
From the COVIDcast Epidata API: The case signal is taken directly from the JHU CSSE COVID-19 GitHub repository. The rate signals were computed by Delphi using Census population data. The 7-day average signals were computed by Delphi by calculating moving averages of the preceding 7 days, so the signal for June 7 is the average of the underlying data for June 1 through 7, inclusive.
Furthermore, the data has been limited to a very small number of rows, the signal names slightly altered, and formatted into an
epi_df.
Data dictionary
The data has columns:
- geo_value
the geographic value associated with each row of measurements.
- time_value
the time value associated with each row of measurements.
- case_rate_7d_av
7-day average signal of number of new confirmed COVID-19 cases per 100,000 population, daily
- death_rate_7d_av
7-day average signal of number of new confirmed deaths due to COVID-19 per 100,000 population, daily
- cases
Number of new confirmed COVID-19 cases, daily
- cases_7d_av
7-day average signal of number of new confirmed COVID-19 cases, daily
Examples
# Since this is a re-exported dataset, it cannot be loaded using
# the `data()` function. `data()` looks for a file of the same name
# in the `data/` directory, which doesn't exist in this package.
# works
epiprocess::cases_deaths_subset
#> An `epi_df` object, 4,026 x 6 with metadata:
#> * geo_type = state
#> * time_type = day
#> * as_of = 2024-03-20
#>
#> # A tibble: 4,026 × 6
#> geo_value time_value case_rate_7d_av death_rate_7d_av cases cases_7d_av
#> * <chr> <date> <dbl> <dbl> <dbl> <dbl>
#> 1 ca 2020-03-01 0.00327 0 6 1.29
#> 2 ca 2020-03-02 0.00435 0 4 1.71
#> 3 ca 2020-03-03 0.00617 0 6 2.43
#> 4 ca 2020-03-04 0.00980 0.000363 11 3.86
#> 5 ca 2020-03-05 0.0134 0.000363 10 5.29
#> 6 ca 2020-03-06 0.0200 0.000363 18 7.86
#> 7 ca 2020-03-07 0.0294 0.000363 26 11.6
#> 8 ca 2020-03-08 0.0341 0.000363 19 13.4
#> 9 ca 2020-03-09 0.0410 0.000726 23 16.1
#> 10 ca 2020-03-10 0.0468 0.000726 22 18.4
#> # ℹ 4,016 more rows
# works
library(epiprocess)
cases_deaths_subset
#> An `epi_df` object, 4,026 x 6 with metadata:
#> * geo_type = state
#> * time_type = day
#> * as_of = 2024-03-20
#>
#> # A tibble: 4,026 × 6
#> geo_value time_value case_rate_7d_av death_rate_7d_av cases cases_7d_av
#> * <chr> <date> <dbl> <dbl> <dbl> <dbl>
#> 1 ca 2020-03-01 0.00327 0 6 1.29
#> 2 ca 2020-03-02 0.00435 0 4 1.71
#> 3 ca 2020-03-03 0.00617 0 6 2.43
#> 4 ca 2020-03-04 0.00980 0.000363 11 3.86
#> 5 ca 2020-03-05 0.0134 0.000363 10 5.29
#> 6 ca 2020-03-06 0.0200 0.000363 18 7.86
#> 7 ca 2020-03-07 0.0294 0.000363 26 11.6
#> 8 ca 2020-03-08 0.0341 0.000363 19 13.4
#> 9 ca 2020-03-09 0.0410 0.000726 23 16.1
#> 10 ca 2020-03-10 0.0468 0.000726 22 18.4
#> # ℹ 4,016 more rows
# fails
if (FALSE) { # \dontrun{
data(cases_deaths_subset, package = "epiprocess")
} # }