Clean raw output from MaxQuant

.cleanRawMaxQuant(
  msstats_object,
  protein_id_col,
  remove_by_site = FALSE,
  channel_columns = "Reporterintensitycorrected"
)

Arguments

msstats_object	object that inherits from MSstatsInputFiles class.
protein_id_col	character, name of a column with names of proteins.
remove_by_site	logical, if TRUE, proteins only identified by site will be removed.
channel_columns	character, regular expression that identifies channel columns in TMT data.

data.table