rubin2bt.all {mi4p}

2nd Rubin's rule Between-Imputation component (all peptides)

Description

Computes the between-imputation component in the 2nd Rubin's rule for all peptides.

Usage

rubin2bt.all(
  data,
  funcmean = meanImp_emmeans,
  metacond,
  is.parallel = FALSE,
  verbose = FALSE
)

Arguments

data

dataset

funcmean

function that should be used to compute the mean

metacond

a factor to specify the groups

is.parallel

should parallel computing be used?

verbose

should messages be displayed?

Value

List of variance-covariance matrices.

Author(s)

Frédéric Bertrand

References

M. Chion, Ch. Carapito and F. Bertrand (2021). Accounting for multiple imputation-induced variability for differential analysis in mass spectrometry-based label-free quantitative proteomics. arxiv:2108.07086. https://arxiv.org/abs/2108.07086.

Examples

library(mi4p)
data(datasim)
datasim_imp <- multi.impute(data = datasim[,-1], conditions = 
attr(datasim,"metadata")$Condition, method = "MLE")
rubin2bt.all(datasim_imp[1:5,,],funcmean = meanImp_emmeans,
attr(datasim,"metadata")$Condition)