Get rate and fraction data
Usage
get_rates_and_fractions(
x,
sites = NULL,
catchments = NULL,
condition = NULL,
icd10_regex = NULL,
maternal = FALSE,
cond_name_short = condition[1],
causal_chain = TRUE,
adjust_vars_override = NULL,
factor_groups = NULL,
pval_cutoff = 0.1,
pct_na_cutoff = 20,
per = 10000
)Arguments
- x
Processed CHAMPS dataset.
- sites
A vector of site names to include in the calculations. If NULL, all sites with data will be used.
- catchments
A vector of catchments to include in the calculations. If NULL, all catchments with data will be used.
- condition
CHAMPS group specifying the condition
- icd10_regex
An optional regular expression specifying ICD10 codes that define a condition.
- maternal
Are we searching for a maternal condition or ICD10 specification? Default is FALSE.
- cond_name_short
The name of the condition to use in outputs (e.g. if the condition is "Congenital birth defects", cond_name_short could be "CBD"). Defaults to
conditionif not specified.- causal_chain
if TRUE, the causal chain is searched, if FALSE, the underlying cause is searched
- adjust_vars_override
An optional vector of adjustment variables that will override the automatic adjustment. Cannot be more than two variables and must include age.
- factor_groups
A named list that specifies how to group factors
- pval_cutoff
P-value for which variables are considered for adjustment. Ignored if adjust_vars_override is specified.
- pct_na_cutoff
Proportion of missingness for which variables are considered for adjustment. Ignored if adjust_vars_override is specified.
- per
Calculate rates and fractions per how many births. 10k is the default.