Loads raw data for a particular pathogen
Usage
load_epidata_raw(
pathogen,
table = c("article", "parameter", "outbreak", "model", "param_name")
)Arguments
- pathogen
name of pathogen. This argument is case-insensitive. Must be one of the priority pathogens You can get a list of the priority pathogens currently included in the package by calling the function
priority_pathogens.- table
the table to be loaded. Must be one of "article", "parameter", "outbreak", "model" or "param_name"
Details
This function will return the raw data as a data.frame. The
csv files of the models, outbreaks, and parameters for a pathogen
do not contain information on the source but only an "article_id"
that can be used to merge them with the articles. If you wish to
retrieve linked information or multiple tables at the same time,
use load_epidata instead.
See also
load_epidata() for a more user-friendly interface
Examples
load_epidata_raw(pathogen = "marburg", table = "outbreak")
#> # A tibble: 23 × 24
#> outbreak_id article_id outbreak_start_day outbreak_start_month
#> <chr> <int> <dbl> <chr>
#> 1 4 20 NA Aug
#> 2 5 23 18 Aug
#> 3 6 23 18 Oct
#> 4 7 21 NA Oct
#> 5 10 33 NA NA
#> 6 12 42 NA Jul
#> 7 13 45 NA Oct
#> 8 14 49 10 Jun
#> 9 17 57 NA Oct
#> 10 19 60 12 Feb
#> # ℹ 13 more rows
#> # ℹ 20 more variables: outbreak_start_year <dbl>, outbreak_end_day <dbl>,
#> # outbreak_end_month <chr>, outbreak_date_year <dbl>,
#> # outbreak_duration_months <dbl>, outbreak_size <dbl>,
#> # asymptomatic_transmission <lgl>, outbreak_country <chr>,
#> # outbreak_location <chr>, cases_confirmed <dbl>, cases_mode_detection <chr>,
#> # cases_suspected <int>, cases_asymptomatic <int>, deaths <int>, …