.cleanRawPD {MSstatsConvert} | R Documentation |
Clean raw Proteome Discoverer data
.cleanRawPD( msstats_object, quantification_column, protein_id_column, sequence_column, remove_shared, remove_protein_groups = TRUE, intensity_columns_regexp = "Abundance" )
msstats_object |
an object of class |
quantification_column |
chr, name of a column used for quantification. |
protein_id_column |
chr, name of a column with protein IDs. |
sequence_column |
chr, name of a column with peptide sequences. |
remove_shared |
lgl, if TRUE, shared peptides will be removed. |
remove_protein_groups |
if TRUE, proteins with numProteins > 1 will be removed. |
intensity_columns_regexp |
regular expressions that defines intensity columns. Defaults to "Abundance", which means that columns that contain the word "Abundance" will be treated as corresponding to intensities for different channels. |
data.table