plot_detect {DEP} | R Documentation |
plot_detect
generates density and CumSum plots
of protein intensities with and without missing values
plot_detect(se)
se |
SummarizedExperiment, Data object with missing values. |
Density and CumSum plots of intensities of
proteins with and without missing values
(generated by ggplot
).
# Load example data <- UbiLength data <- data[data$Reverse != "+" & data$Potential.contaminant != "+",] data_unique <- make_unique(data, "Gene.names", "Protein.IDs", delim = ";") # Make SummarizedExperiment columns <- grep("LFQ.", colnames(data_unique)) exp_design <- UbiLength_ExpDesign se <- make_se(data_unique, columns, exp_design) # Filter filt <- filter_missval(se, thr = 0) # Plot intensities of proteins with missing values plot_detect(filt)