create_comat: Create co-occurrence matrix without explicit entity type...

In LBDiscover: Literature-Based Discovery Tools for Biomedical Research

Create co-occurrence matrix without explicit entity type constraints

Description

This function creates a co-occurrence matrix from entity data while preserving entity type information as an attribute without enforcing type constraints.

Usage

create_comat(
  entity_data,
  doc_id_col = "doc_id",
  entity_col = "entity",
  count_col = NULL,
  type_col = "entity_type",
  normalize = TRUE,
  normalization_method = c("cosine", "jaccard", "dice")
)

Arguments

entity_data	A data frame with document IDs and entities.
doc_id_col	Name of the column containing document IDs.
entity_col	Name of the column containing entity names.
count_col	Name of the column containing entity counts (optional).
type_col	Name of the column containing entity types (optional).
normalize	Logical. If TRUE, normalizes the co-occurrence matrix.
normalization_method	Method for normalization ("cosine", "jaccard", or "dice").

Value

A co-occurrence matrix with entity types stored as an attribute.

LBDiscover documentation built on June 16, 2025, 5:09 p.m.