Link TFs to potential target genes based on TFBS-TSS proximity or 3D interaction data — module2_identify_candidate_links • craftgrn

Link TFs to potential target genes based on TFBS-TSS proximity or 3D interaction data

Usage

module2_identify_candidate_links(
  multiomic_data,
  predicted_tfbs,
  gene_tss = NULL,
  regulatory_prior = NULL,
  project_config = NULL,
  max_distance_bp = NULL,
  verbose = TRUE
)

Arguments

multiomic_data: CraftGRN multiomic object.
predicted_tfbs: Predicted TFBS table or path from Module 1.
gene_tss: Optional gene TSS table or path.
regulatory_prior: Optional generic FP-target prior.
project_config: Optional project config path or list.
max_distance_bp: Maximum signed distance to TSS.
verbose: Emit concise progress messages.

Value

A list of normalized Module 2 inputs used by downstream step functions.