plotMissingness: Plots missingness matrix

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

Plots missingness matrix

Description

Plots missingness matrix

Usage

plotMissingness(
  report,
  metadata,
  Q_THR = 0.01,
  feature_var = "Precursor.Id",
  run_order_var = "run_order",
  subtitle = "",
  prevalence_filter = 0.1
)

Arguments

metadata	experiment description to arrange by run_order output from create_metadata
run_order_var	variable for sample running order
subtitle	string for a subtitle
prevalence_filter	filter out non-prevalent proteins, default: 0.1
report	DIA-NN report file
feature_var	feature for plotting missingness values
Q_THR	Q-value filtering threshold, default: 0.01

Examples

metadata <- create_metadata(diann_report)
plotMissingness(diann_report, metadata = metadata, prevalence_filter = 0.5)

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