Create a report from bioRxiv/medRxiv preprints

Usage

biorecap_report(
  output_dir = ".",
  subject = NULL,
  nsentences = 2L,
  model = "llama3.2",
  host = NULL,
  use_example_preprints = FALSE,
  ...
)

Arguments

output_dir: Directory to save the report.
subject: Character vector of subjects to include in the report.
nsentences: Number of sentences to summarize each paper in.
model: The model to use for generating summaries. See ollamar::list_models().
host: The base URL to use. Default is NULL, which uses Ollama's default base URL.
use_example_preprints: Use the example preprints data included with the package instead of fetching new data from bioRxiv/medRxiv. For diagnostic/testing purposes only.
...: Other arguments passed to rmarkdown::render().

Value

Nothing; called for its side effects to produce a report.

Examples

if (FALSE) { # \dontrun{
output_dir <- tempdir()
biorecap_report(use_example_preprints=TRUE, output_dir=output_dir)
biorecap_report(subject=c("bioinformatics", "genomics", "synthetic_biology"),
                output_dir=output_dir)
} # }