Scans manuscripts, bibliographies, and reference lists for
    citations to retracted publications so that authors can avoid citing
    retracted work. 'retraction' reads bibliographic formats (BibTeX,
    BibLaTeX, CSL-JSON, RIS, EndNote XML) and document formats (R Markdown,
    Quarto, 'LaTeX', Markdown, HTML, JATS XML, Word, and PDF), extracts and
    normalizes identifiers, and checks them against retraction data. The
    default data source is the Retraction Watch database served through the
    'XeraRetractionTracker' API; 'Crossref', 'OpenAlex', 'Europe PMC', 'PubMed',
    'DataCite', and a preprint source ('arXiv' and 'bioRxiv' withdrawals) are
    available as additional sources ('OpenAlex' retraction data is itself derived
    from Retraction Watch). Within each source, matching proceeds from exact
    Digital Object Identifier (DOI) and 'PubMed' identifier lookups to fuzzy
    title matching, and results are returned as a tidy table with a match-quality
    score and an optional self-contained HTML report.

Generates disease-specific drug-response profiles that are independent of time, concentration, and cell-line. Based on the cell lines used as surrogates, the returned profiles represent the unique transcriptional changes induced by a compound in a given disease.

Provides tools for working with Type S (Sign) and
    Type M (Magnitude) errors, as proposed in Gelman and Tuerlinckx (2000)
    <doi:10.1007/s001800000040> and
    Gelman & Carlin (2014) <doi:10.1177/1745691614551642>.
    In addition to simply calculating the probability of
    Type S/M error, the package includes functions for calculating these errors
    across a variety of effect sizes for comparison, and recommended sample size
    given "tolerances" for Type S/M errors. To improve the speed of these
    calculations, closed forms solutions for the probability of a Type S/M error
    from Lu, Qiu, and Deng (2018) <doi:10.1111/bmsp.12132>
    are implemented. As of 1.0.0, this includes
    support only for simple research designs. See the
    package vignette for a fuller exposition on how Type S/M errors arise in
    research, and how to analyze them using the type of design analysis proposed
    in the above papers.