R/within_variance_comp_emmeans.R
within_variance_comp_emmeans.Rd
Computes the multiple imputation within variance component using the emmeans package.
within_variance_comp_emmeans(ind, peptide, data, metacond)
ind | index |
---|---|
peptide | name of the peptide |
data | dataset |
metacond | a factor to specify the groups |
A variance-covariance matrix.
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.
Frédéric Bertrand
library(mi4p) data(datasim) datasim_imp <- multi.impute(data = datasim[,-1], conditions = attr(datasim,"metadata")$Condition, method = "MLE") within_variance_comp_emmeans(1,1,datasim_imp, attr(datasim,"metadata")$Condition)#> [,1] [,2] #> [1,] 0.1911347 0.0000000 #> [2,] 0.0000000 0.1911347