Read an XML variant report

Parse a structured XML variant interpretation report (e.g. from Molecular Health or similar providers) into a tidy tibble.

Usage

mp_read_xml_report(path, provider = "molecular_health")

Arguments

path

Character scalar. Path to the .xml file.

provider

Character scalar. Report provider template to apply. Currently supported: "molecular_health" (default).

Value

A molpath_parsed object whose data slot is a tibble with one row per variant and columns for patient info, sample info, gene, variant description, classification, evidence level, and therapeutic implications.

Examples

# \donttest{
xml_file <- system.file("extdata", "report.xml", package = "molpathR")
if (nzchar(xml_file)) {
  result <- mp_read_xml_report(xml_file, provider = "molecular_health")
  print(result)
}
# }