tx_to_coding {pathling}

Convert codes to Coding structures

Description

Converts a Column containing codes into a Column that contains a Coding struct.

Usage

tx_to_coding(coding_column, system, version = NULL)

Arguments

coding_column

The Column containing the codes.

system

The URI of the system the codes belong to.

version

The version of the code system.

Details

The Coding struct Column can be used as an input to terminology functions such as tx_member_of and tx_translate. Please note that inside sparklyr verbs such as mutate the functions calls need to be preceded with !!, e.g: !!tx_to_coding(CODE, SNOMED_URI).

Value

A Column containing a Coding struct.

See Also

FHIR R4 - Coding

Other terminology helpers: tx_to_ecl_value_set(), tx_to_loinc_coding(), tx_to_snomed_coding()

Examples

pc <- pathling_connect()
condition_df <- pathling_spark(pc) %>% sparklyr::copy_to(conditions)

# Convert codes to ICD-10 codings.
condition_df %>% sparklyr::mutate(
    icdCoding = !!tx_to_coding(CODE, "http://hl7.org/fhir/sid/icd-10"), .keep = 'none'
)

pathling_disconnect(pc)