Filter the calculated similarities — filter

This function calculates the critical value, see calculate_critical_value() and filters subsequently all the term pairs to the ones with a value ≥ critical value.

Usage

filter_similarities(
  object,
  alpha,
  permutations = 100000L,
  seed = 10101L,
  .verbose = TRUE
)

Arguments

object: OntologySim class. See OntologySim().
alpha: Float. The alpha value. For example, 0.001 would mean that the critical value is smaller than 0.1 percentile of the random permutations.
permutations: Number of random permutations.
seed: Integer. For reproducibility purposes.
.verbose: Boolean. Controls verbosity of the function.

Value

The class with filtered results added to the respective slot.