This function takes a dataframe as input (this will typically be params
data.frame from the output of load_epidata) and reorders it
to provide a sensible order for plotting.
For each country, studies are ordered by the parameter value or the midpoint
of the parameter range if the parameter value is missing. It creates a new
column 'y' which is an ordered factor with levels corresponding to the
article_label. To order the studies in some other way, set reorder_studies to
FALSE in the parameter specific
forest plot functions (e.g. forest_plot_rt).
Examples
ebola <- load_epidata("ebola")
#> Warning: One or more parsing issues, call `problems()` on your data frame for details,
#> e.g.:
#> dat <- vroom(...)
#> problems(dat)
#> Warning: No data found for ebola
#> Warning: One or more parsing issues, call `problems()` on your data frame for details,
#> e.g.:
#> dat <- vroom(...)
#> problems(dat)
#> Warning: No outbreaks information found for ebola
#> Data loaded for ebola
params <- ebola$params
rt <- params[params$parameter_type == "Reproduction number (Effective, Re)", ]
reorder_studies(param_pm_uncertainty(rt))
#> # A tibble: 91 × 82
#> id parameter_data_id covidence_id pathogen parameter_type parameter_value
#> <chr> <chr> <int> <chr> <chr> <dbl>
#> 1 472ee… a97b0a0cd787228e… 23719 Ebola v… Reproduction … 0.33
#> 2 f22ca… baf56944162b6acc… 404 Ebola v… Reproduction … 0.73
#> 3 59052… f09308ea7f9dfa18… 17881 Ebola v… Reproduction … NA
#> 4 54159… 9254ff2db0ac53e8… 3138 Ebola v… Reproduction … 0.84
#> 5 d03ce… 028c5c53f6ba5d73… 19035 Ebola v… Reproduction … 0.9
#> 6 aca68… 0fdc709369f7d292… 6003 Ebola v… Reproduction … 1.03
#> 7 59052… bd021cac38430bdf… 17881 Ebola v… Reproduction … 1.03
#> 8 07c43… dd6de5f34483b208… 17206 Ebola v… Reproduction … 1.06
#> 9 59544… 94e97cdb2fcc3029… 19291 Ebola v… Reproduction … 1.11
#> 10 8d70f… fd15f4e8f5d66c97… 17192 Ebola v… Reproduction … 1.14
#> # ℹ 81 more rows
#> # ℹ 76 more variables: exponent <dbl>, parameter_unit <chr>,
#> # parameter_lower_bound <dbl>, parameter_upper_bound <dbl>,
#> # parameter_value_type <chr>, parameter_uncertainty_single_value <dbl>,
#> # parameter_uncertainty_singe_type <chr>,
#> # parameter_uncertainty_lower_value <dbl>,
#> # parameter_uncertainty_upper_value <dbl>, …