tImpute {PhosR} | R Documentation |
Tail-based imputation approach as implemented in Perseus.
tImpute(mat, m, s, assay)
mat |
a matrix (or PhosphoExperiment object) with rows correspond to phosphosites and columns correspond to samples. |
m |
a numeric number for controlling mean downshifting. |
s |
a numeric number for controlling standard deviation of downshifted sampling values. |
assay |
an assay to be selected if |
An imputed matrix. If param mat
is a SummarizedExperiment
object, a SummarizedExperiment object will be returned.
data('phospho.cells.Ins.sample') grps = gsub('_[0-9]{1}', '', colnames(phospho.cells.Ins)) phospho.cells.Ins.filtered <- selectGrps(phospho.cells.Ins, grps, 0.5, n=1) set.seed(123) phospho.cells.Ins.impute <- tImpute(phospho.cells.Ins.filtered) # For PhosphoExperiment Object data('phospho.cells.Ins.pe') grps = gsub('_[0-9]{1}', '', colnames(phospho.cells.Ins.pe)) phospho.cells.Ins.filtered <- selectGrps(phospho.cells.Ins.pe, grps, 0.5, n=1) set.seed(123) phospho.cells.Ins.impute <- tImpute(phospho.cells.Ins.filtered)