This guide will help guide you to savely load your own data.
The original column names from MaxQuant contains spaces, which must
be parsed as space for NetPhorce::confirmIntensityColumns()
function to run, here we demonstrate one of the ways to correctly load
the MaxQuant data to R environment via read_delim from
tidyverse.
library(readr)
maxquantData = read_delim("<Path_to_Your_MaxQuant_File>", delim = "\t")Once the data is loaded, please make sure you check on of the intensity column, i.e. “Intensity HT_0min_A___1”, and make sure there is a space between “Intensity” and the TIME/REP/CON string. You can use the following script demo to check
The output from the knownColumnName %in% colnames(maxquantData) need
to return TRUE.