Identifies Indicators of Transparency

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Documentation for package ‘rtransparency’ version 1.0.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

rtransparency-package	rtransparency: Identify indicators of transparency in the biomedical literature
rtransparency	rtransparency: Identify indicators of transparency in the biomedical literature
rt_accuracy	Detector accuracy estimates
rt_ai	Identify disclosure of generative-AI use from a TXT file.
rt_ai_pmc	Identify disclosure of generative-AI use from a PMC XML file.
rt_all	Identify and extract transparency statements from a TXT file.
rt_all_pmc	Identify and extract all transparency indicators from a PMC XML.
rt_all_pmc_dir	Identify transparency indicators across many PMC XML files.
rt_coi	Identify and extract Conflicts of Interest (COI) statements in TXT files.
rt_coi_pmc	Identify and extract Conflicts of Interest (COI) statements in PMC XML files.
rt_data_code	Identify and extract Data and Code statements in TXT files.
rt_data_code_pmc	Identify and extract Data and Code sharing from PMC XML files.
rt_data_code_pmc_list	Identify and extract Data and Code sharing from a list of PMC XML files.
rt_demo	Simulated transparency indicators for a corpus of articles
rt_fund	Identify and extract Funding statements in TXT files.
rt_fund_pmc	Identify and extract Funding statements in PMC XML files.
rt_meta_pmc	Extract article metadata from a PMC XML file.
rt_novelty	Identify whether a study claims novelty in TXT files.
rt_novelty_pmc	Identify and extract novelty claims in PMC XML files.
rt_plot	Plot transparency indicators
rt_read_pdf	Convert a PDF file to text.
rt_register	Identify and extract Registration statements in TXT files.
rt_register_pmc	Identify and extract Conflicts of Interest statements in PMC XML files.
rt_replication	Identify whether a study includes a replication component in TXT files.
rt_replication_pmc	Identify and extract replication components in PMC XML files.
rt_score	Count the transparency indicators met by each article
rt_summary	Summarize transparency indicators across a corpus of articles