Filter Significant Interactions

Source: R/communication.R

Filter Significant Interactions

filterSignificantInteractions(
  object,
  pvalue_threshold = 0.05,
  adjust_method = "metabolite_stratified",
  min_score = 0
)

Arguments

object

scMetaLink object

pvalue_threshold

Numeric. P-value threshold (default: 0.05)

adjust_method

Character. Multiple testing correction method: "BH", "bonferroni", "holm", "none", or "metabolite_stratified" (recommended, performs BH within each metabolite)

min_score

Numeric. Minimum communication score (default: 0)

Value

Updated scMetaLink object

Details

The adjust_method parameter controls how p-values are corrected for multiple testing:

  • "metabolite_stratified" (recommended): Performs BH correction within each metabolite, then combines results. This is less conservative than global correction and more biologically meaningful since metabolites are independent biological signals.

  • "BH", "bonferroni", "holm": Standard global correction methods. Can be very conservative when testing many interactions.

  • "none": No correction, uses raw p-values. Use with caution.