compute_correlations: Compute correlation in protein recruitment

In VoisinneG/InteRact: Analysis of affinity purification/tandem MS data

Compute correlation in protein recruitment

Description

Compute correlation in protein recruitment from interaction stoichiometries computed across all conditions for each biological replicate. Pearson correlations are used.

Usage

compute_correlations(
  res,
  idx = NULL,
  log = FALSE,
  n_edges_max = NULL,
  strict = TRUE,
  Rmin = 0,
  n_min = 3,
  P_max = 1
)

Arguments

res	an InteRactome or a data.frame
idx	indexes of the set of proteins for which correlations will be computed
log	logical, use log-transformed stoichiometries
n_edges_max	integer, limits the number of edges per node
strict	logical, if TRUE, ensures a strict upper bound on the maximal degree
Rmin	minimum absolute value of the Pearson R coefficient
n_min	minimum number of values used to compute correlation
P_max	maximum p-value associated with the correlation

Value

a data.frame with protein correlation information (correlation coefficient in column 'r_corr' and associated p-value in column 'p-corr')

VoisinneG/InteRact documentation built on May 17, 2022, 11:40 p.m.