removeDecoyProteins {SWATH2stats} | R Documentation |
There exist peptides annotated as protein groups with 2/ProteinA/DECOY_ProteinB. However these are in principal proteotypic peptides and should be annoated 1/ProteinA. This function changes these labels accordingly. The subfunction rmDecoyProt removes the Decoy protein, calling removeDecoyProteins also changes the nubmer before the protein group accordingly.
removeDecoyProteins(data)
data |
A data frame containing SWATH data. |
Returns a data frame with changed protein labels.
Moritz Heusel
data("OpenSWATH_data", package="SWATH2stats") data("Study_design", package="SWATH2stats") data <- sample_annotation(OpenSWATH_data, Study_design) data.filtered.decoy <- filter_mscore(data, 0.01) data.2 <- removeDecoyProteins(data.filtered.decoy)