QA functions for the MoTrPAC community

plot_basic_metabolomics_qc

R Documentation

Plot Basic Metabolomics QC charts

Description

Plot intensity distributions, number of unique ids, NA values and RT/MZ density maps (only untargeted)

Usage

plot_basic_metabolomics_qc(
  results,
  results_long,
  metametab = NULL,
  out_qc_folder = NULL,
  output_prefix,
  printPDF = TRUE,
  untargeted = TRUE,
  verbose = TRUE
)

Arguments

`results`	(df) metabolomics results (both named and unnamed already merged, if untargeted)
`results_long`	(df) metabolomics results (both named and unnamed already merged, if untargeted, in long format)
`metametab`	(df) metadata samples metadata (only untargeted sites)
`out_qc_folder`	(char) output qc folder (it creates the folder if it doesn't exist)
`output_prefix`	(char) prefix for the file name output (pdf file)
`printPDF`	(logical) `TRUE` (default) prints pdf file
`untargeted`	(logical) `TRUE` if the dataset is untargeted (named + unnamed metabolites)
`verbose`	(logical) `TRUE` (default) shows messages