easypaper: automate reproducible Quarto manuscripts ready for submission

create_paper() writes a project that holds only the paper: the text split into sections, the references and the journal's citation style, the setup of the analysis and the data; create_example_paper() writes the same with a small study in it, to see how each part is written. The functions of the package then build it:

Details

• render it for any journal: render_html() while you write, render_docx() and render_pdf() for what you send, render_supplementary() for the supplement on its own, render_all() for all of them;

• check it before every render: check_citations(), check_crossrefs(), check_packages(), check_data() and the rest of checks, and check_species() for the scientific names of the references, and, when you ask, check_species_text() for those of the text;

• assemble what you send: make_preprint() for a preprint server, with its data deposit, deposit_zenodo() to reserve the DOI of the data, and make_submission() for a journal, with the manuscript split for double-blind review and a data and code compendium;

• keep it in step: convert_data() brings data into data/ in open formats, sync_metadata() and edit_metadata() describe the data deposit, and add_journal() fetches any journal's citation style.

Every function works on the project you name: once a session with set_paper() – set_paper(".") once its .Rproj is open – or in a call with its path argument. A function that writes never takes the working directory for the project: with none named, it stops before writing. One that only reads takes the working directory's project when none is named.

Settings

What a project wants done differently is written in the easypaper: block of its _quarto.yml, so it travels with the project: whether the scientific names of the references go in italics (italicize-species), the sections a double-blind submission moves to the title page (blinded-sections), extra open formats for convert_data() (open-formats), caption styles of your own (caption-styles) and the Google Drive folder of td_upload() (trackdown-folder).

See also

vignette("easypaper") for a tour.

Author

Maintainer: Daniel Sanchez-Garcia danielsangarci@gmail.com (ORCID) [copyright holder]

Authors:

• Daniel Sanchez-Garcia danielsangarci@gmail.com (ORCID) [copyright holder]