Read in data from DIA-NN

This function reads in the report.tsv file from DIA-NN, performs filtering using the Q-Value columns and then joins together the quantification from the individual samples

Usage

readDIANNFilterQJoin(
  diann_report_infile,
  global_protein_q = 0.01,
  run_protein_q = 0.01,
  run_precursor_q = 0.01,
  return_sep_quant = FALSE
)

Arguments

diann_report_infile

character. Filepath to DIA-NN report.tsv file

global_protein_q

numeric. Threshold for global protein FDR

run_protein_q

numeric. Threshold for run-specific protein FDR

run_precursor_q

numeric. Threshold for run-specific precursor FDR

return_sep_quant

logical. Return the individual sample-level quantification as well