row_stoichio: Compute the stoichiometry of interaction using the method...

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

Compute the stoichiometry of interaction using the method described in ...

Description

Compute the stoichiometry of interaction using the method described in ...

Usage

row_stoichio(
  df,
  idx_group_1,
  idx_group_2,
  idx_bait,
  Npep,
  log = TRUE,
  substract_ctrl = TRUE,
  use_mean_for_bait = TRUE,
  idx_group_1_mean,
  idx_group_2_mean
)

Arguments

df	a data frame
idx_group_1	column indexes corresponding to the first group (bait background)
idx_group_2	column indexes corresponding to the second group (ctrl background)
idx_bait	row index for the bait protein
Npep	numeric vector containing the number of theoretically observable peptides for each protein
log	logical, use the geometric mean instead of the arithmetic mean
substract_ctrl	logical, substract ctrl intensities in the calculation of stoichiometries
use_mean_for_bait	logical, average bait intensities across all conditions to compute interaction stoichiometries
idx_group_1_mean	if use_mean_for_bait is TRUE, column indexes for the bait protein corresponding to the first group (bait background)
idx_group_2_mean	if use_mean_for_bait is TRUE, column indexes for the bait protein corresponding to the second group (ctrl background)

Value

A numeric vector of interaction stoichiometries

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