plotExperiment: Plots Experiment

In alzel/proteomicsQC: A set of Routines to plot and analyse DIA-NN reports

Plots Experiment

Description

Plots Experiment

Usage

plotExperiment(
  report,
  metadata,
  Q_THR = 0.01,
  feature_var = "Precursor.Id",
  feature_value = "Precursor.Quantity",
  run_order_var = "run_order",
  subtitle = "",
  qc_pattern = ".*?QC.*?"
)

Arguments

metadata	experiment description to arrange by run_order output from create_metadata
run_order_var	variable for sample running order
subtitle	a string for a plot's subtitle
qc_pattern	QC file pattern
report	DIA-NN report file
Q_THR	Q-value filtering threshold, default: 0.01
feature_value	feature value to plot, default: "Precursor.Quantity"
feature_var	feature variable, default: "Precursor.Id"

Examples

metadata <- create_metadata(diann_report)
plotExperiment(diann_report, metadata = metadata, Q_THR = 0.01)

alzel/proteomicsQC documentation built on Aug. 11, 2022, 5:58 p.m.