visualizePreprocessing: Visualize expression data before and after preprocessing

In holgerman/HT12ProcessoR: Preprocessing Illuminas HT12 v4 data

Description

Visualisation of control features and expression data before and after preprocessing in several plots. Thereby, raw data before preprocessing is log2 transformed for a more meaningful comparison

Usage

visualizePreprocessing(
  ht12object,
  paramfile = NULL,
  show_qcplots_individSamplelevel = "from_paramfile",
  showPlots = T
)

Arguments

ht12object	A list object of class HT12prepro created with function filterAtypicalExpressed()
paramfile	Path to the file specifying parameters
show_qcplots_individSamplelevel	Show QC plots comparing expression values before / after preprocessing either binned on SentrixID ('FALSE') or binned on Sample ID ('TRUE')? If "from_paramfile", than the parameter will be read from the paramfile with the location of this file given in parameter paramfile.
showPlots	Show plots. If FALSE, plots are only stored in slot $dokuobjects_visualizePreprocessing

Value

A list object of class HT12prepro including additional slots $dokuobjects_visualizePreprocessing

holgerman/HT12ProcessoR documentation built on June 5, 2021, 9:18 a.m.