find_bowties: Find strings of high-confidence interactions between protein...

In k-niss/bowtie: Create wTO matrices to decode network topology

Description

Find strings of high-confidence interactions between protein complexes in a first-order direct interaction matrix.

Usage

find_bowties(
  full_matrix,
  protein_complex_areas,
  int_fan_min_size = 10,
  int_fan_avg_conf_score = 0.9
)

Arguments

full_matrix	A first-order direct interaction matrix containing scores between 0-1, where 1 indicates an interaction with highest confidence and 0 indicates no interaction.
protein_complex_areas	Start and end ranges along the matrix diagonal annotated to be protein complex submatrices.
int_fan_min_size	Minimum number of interactions in a bow-tie interaction fan (default: 10).
int_fan_avg_conf_score	Minimum average confidence score across the interactions in a bow-tie interaction fan (default: 0.9).

Value

Returns a list of "knot" proteins and their interactions fans indicated by start and end range indicies.

k-niss/bowtie documentation built on March 10, 2020, 10:10 a.m.