setNoiseLevels: A function for setting and plotting noise levels.

In mrbin: Metabolomics Data Analysis Functions

A function for setting and plotting noise levels.

Description

This function reads parameters from the global variable mrbin.env$mrbin$parameters and plots exemplary spectra and respective noise levels. Plots will be saved if saveFiles is set to "Yes".

Usage

setNoiseLevels(
  mrbinObject,
  plotOnly = FALSE,
  showSpectrumPreview = NULL,
  silent = FALSE
)

Arguments

mrbinObject	An mrbin object
plotOnly	Should only noise plots be generated (TRUE), or should noise levels be adjusted interactively (FALSE)
showSpectrumPreview	Should plots be shown? If not provided, this value will be taken from the mrbin object parameters
silent	If set to TRUE, plots will not be shown but might still be saved

Value

An invisible mrbin object

Examples

 mrbinObject<-mrbin(silent=TRUE,
                   parameters=list(verbose=TRUE,dimension="1D",PQNScaling="No",
                   binwidth1D=0.04,signal_to_noise1D=1,PCA="No",binRegion=c(9.5,0.5,10,156),
                   saveFiles="No",referenceScaling="No",noiseRemoval="No",
                   fixNegatives="No",logTrafo="No",noiseThreshold=.05,tryParallel=TRUE,
                   NMRfolders=c(system.file("extdata/2/10/pdata/10",package="mrbin"),
                              system.file("extdata/3/10/pdata/10",package="mrbin"))
                   ))
 mrbinObject<-setNoiseLevels(mrbinObject,plotOnly=TRUE)

mrbin documentation built on June 22, 2024, 9:39 a.m.