Perform comprehensive literature-based discovery without type constraints

This function performs a comprehensive literature-based discovery analysis using multiple approaches without enforcing entity type constraints.

Usage

run_lbd(
  search_query,
  a_term,
  max_results = 100,
  discovery_approaches = c("abc", "anc", "lsi", "bitola"),
  include_visualizations = TRUE,
  output_file = "discovery_report.html",
  api_key = NULL,
  dictionary_sources = c("local", "mesh", "umls"),
  entity_categories = c("disease", "drug", "gene")
)

Arguments

search_query: Character string, the search query for retrieving initial articles.
a_term: Character string, the source term (A) for discovery.
max_results: Maximum number of results to return for each approach.
discovery_approaches: Character vector, the discovery approaches to use.
include_visualizations: Logical. If TRUE, generates visualizations.
output_file: File path for the output report.
api_key: Character string. API key for PubMed and other services.
dictionary_sources: Character vector. Sources for entity dictionaries: "local", "mesh", "umls".
entity_categories: Character vector. Entity categories to include.

Value

A list containing discovery results from all approaches.

Examples

if (FALSE) { # \dontrun{
discovery_results <- run_lbd(
  search_query = "migraine headache",
  a_term = "migraine",
  discovery_approaches = c("abc", "anc", "lsi"),
  dictionary_sources = c("mesh"),
  entity_categories = c("disease", "drug", "gene", "protein")
)
} # }