Skip to contents

Identify and extract Conflicts of Interest (COI) statements in PMC XML files.

Source: R/rt_coi_pmc.R
rt_coi_pmc.Rd

Takes a PMC XML file and returns data related to the presence of a COI statement, including whether a COI statement exists. If a COI statement exists, it extracts it.

Usage

rt_coi_pmc(filename, remove_ns = TRUE)

Arguments

filename

The name of the PMC XML as a string.

remove_ns

Ignored since version 1.2.0 and kept for backward compatibility. Default XML namespaces are now always removed, so a namespaced PMC XML file gives the same result as a plain one.

Value

A dataframe of results. It returns unique article identifiers, whether this article was deemed relevant to COI, whether a COI was found, the text that suggested the presence of COI and the name of the function that identified this text. The functions are returned to add flexibility in how this package is used, such as future definitions of COI that may differ from the one we used.

Examples

# \donttest{
# Path to a bundled example PMC XML file.
filepath <- system.file(
  "extdata", "PMID32171256-PMC7071725.xml", package = "rtransparency"
)

# Identify and extract meta-data and indicators of transparency.
results_table <- rt_coi_pmc(filepath)
# }