Package index • metacheck

Reading in Papers

metacheck_app(): Launch Shiny App
convert(): Convert documents
convert_bibr(): Convert documents using bibr
convert_grobid(): Convert a PDF to Grobid XML
grobid_to_bibr(): Convert Grobid TEI XML file to bibr format
read(): Read in grobid XML or bibr JSON
demopaper(): Get demo paper
demofile(): Get a demo file
psychsci: Psychological Science Open Access Paper Set
test_paper(): Test paper
paper_id(): Get Paper IDs
paper_write(): Write paper
paper_validate(): Validate a Paper Object

Search Papers

text_search() search_text(): Search text
text_expand() expand_text(): Expand text
paper_table(): Paper tables
ref_table(): Reference and DOI table

Module Functions

module_list(): List modules
module_help(): Get Module Help
module_info(): Get module information
module_run(): Run a module
module_report(): Report from module output
module_template(): Create a Module from a Template
report(): Create a Report
report_module_run(): Run modules for a report
report_qmd(): Create Report from Module Output

Module Helpers

These functions help module writers make consistently formatted report text.

scroll_table(): Make Scroll Table
report_table(): Display a Table in a Report
collapse_section(): Make Collapsible Section
plural(): Pluralise
link(): Make an html link
logger(): Log messages
lastlog(): Get the last log
format_ref(): Format Reference
get_prev_outputs(): Get Previous Outputs
format_bib_authors(): Format Bib Authors
fig_image_view(): View a figure image

Code Check Helpers

These functions help repo_check and code_check modules to assess code files.

code_abs_path(): Return Absolute Paths
code_extract_r(): Convert Rmd/qmd files to R code only
code_file_refs(): Get files referenced in code
code_lang(): Detect Code Language
code_library_lines(): Get Code Library Lines
code_line_stats(): Get Code Composition Stats
code_parse_r(): Parse code to check for errors
code_read(): Read code from files
code_remove_comments(): Remove comments from code text

LLM Functions

llm(): Query an LLM
llm_max_calls(): Set the maximum number of calls to the LLM
llm_model(): Set the default LLM model
llm_model_list(): List LLM Models
llm_use(): Set or get metacheck LLM use
json_expand(): Expand a JSON column

References/Citations

add_bib_match(): Match table from bib table
crossref_doi(): CrossRef Info from DOI
crossref_query(): Look up Reference in CrossRef
datacite_doi(): Doi.org Info from DataCite
doi_clean(): Clean DOIs
doi_lookup(): Doi.org Info from DOI
doi_valid_format(): Validate DOI format
doi_resolves(): Check whether a DOI resolves
FLoRA(): FORRT Replication Database (FLoRA)
FLoRA_update(): Update FLoRA
FLoRA_date(): Get date FLoRA was updated
openalex_doi(): OpenAlex info from DOI
openalex_query(): Look up a reference in OpenAlex
pubpeer_comments(): Get Pubpeer Comments
retractionwatch() rw(): RetractionWatch data
rw_date(): Get date retractionwatch was updated
rw_update(): Update retractionwatch

OSF Functions

osf_links(): Find OSF Links in Papers
osf_info(): Retrieve info from the OSF by ID
osf_file_download(): Download all OSF Project Files
osf_api_check(): Check OSF API Server Status
osf_check_id(): Check OSF IDs
osf_delay(): Set the OSF delay
osf_get_all_pages(): Get All OSF API Query Pages
osf_preprint_list(): Get A list of preprints from the OSF
osf_type(): Get OSF GUID Type

GitHub Functions

github_links(): Find GitHub Links in Papers
github_repo(): Get Short GitHub Repo Name
github_info(): Get GitHub Repo Info
github_files(): Get File List from GitHub
github_readme(): Get README from GitHub
github_languages(): Get Languages from GitHub Repo

Archive Functions

local_files(): List Local Files
aspredicted_links(): Find AsPredicted Links in Papers
aspredicted_info(): Retrieve info from AsPredicted by URL
rbox_links(): Find ResearchBox Links in Papers
rbox_info(): Retrieve info from ResearchBox by URL
rbox_file_download(): Retrieve files from ResearchBox by URL
zenodo_links(): Find Zenodo Links in Papers
zenodo_info(): Retrieve info from Zenodo by URL
zenodo_file_download(): Download all Zenodo Project Files

Integrations

email(): Set or get email
filetype(): Get file Type from Extension
file_category(): Categorise files
causal_relations(): Extract causal relations from sentence(s) via a Hugging Face Space

Validation Functions

validate(): Validate
accuracy(): Accuracy

Extras

extract_eq(): Extract P-Values
extract_p_values(): Extract P-Values
extract_urls(): Extract URLs
stats(): Check Stats
emojis: Emojis