Download Phecode 1.2 files

Downloads the Phecode 1.2 definitions file and/or mapping files from phewascatalog.org.

Usage

get_phecode(
  dir_path = tempdir(),
  files = c("lkp", "icd10_map", "icd9_map"),
  overwrite = FALSE,
  quiet = FALSE
)

Arguments

dir_path

Directory to download files to. Defaults to tempdir().

files

Character vector of files to download. Available options:

• "lkp" — Phecode 1.2 definitions (lookup)

• "icd10_map" — Phecode 1.2 to ICD-10 mapping (beta)

• "icd9_map" — Phecode 1.2 to ICD-9 mapping

By default, downloads all three.

overwrite

Logical. If TRUE, re-downloads existing files. Default is FALSE.

quiet

Logical. If TRUE, suppresses informational messages. Default is FALSE.

Value

A named list of file paths (invisibly), with names "lkp", "icd10_map", and/or "icd9_map" corresponding to the requested files.

See also

read_phecode(), add_phecode()

Examples

if (FALSE) { # \dontrun{
paths <- get_phecode()
paths <- get_phecode(files = c("lkp", "icd10_map"), dir_path = "~/phecode")
} # }