Identify specific interactors in an InteRactome

Source: R/Main_functions.R

Identify specific interactors in an InteRactome

identify_interactors(res, var_p_val = "p_val", p_val_thresh = 0.05,
  fold_change_thresh = 2, conditions = res$conditions,
  n_success_min = 1, consecutive_success = FALSE, p_val_breaks = c(1,
  min(1, 4 * p_val_thresh), min(1, 2 * p_val_thresh), min(1,
  p_val_thresh)), var_min_p_val = paste("min_", var_p_val, sep = ""),
  ...)

Arguments

res

an InteRactome
var_p_val

name of the p-value variable
p_val_thresh

p-value threshold
fold_change_thresh

fold-change threshold
conditions

Select conditions used to identify interactors
n_success_min

minimal number of conditions in which the interactor must pass the the p-value and the fold-change thresholds
consecutive_success

logical, impose that the interactor must pass selection thresholds in n_success_min consecutive conditions.
p_val_breaks

numeric vector to discretize p-values. Passed to function order_interactome()
var_min_p_val

name of the p-value variable used to order the interactome. Passed to function order_interactome()
...

additionnal paramters passed to function order_interactome()

Value

an InteRactome with extra variables is_interactor, n_success and interactor