# Identifies Indicators of Transparency

## Documentation for package ‘rtransparency’ version 1.0.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## 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