PerformPeakProfiling: Perform peak annotation This function performs feature...

In simscr/metaboanalyst: An R Package for Comprehensive Analysis of Metabolomics Data

Description

Perform peak annotation This function performs feature extraction of user's raw MS data using the rawData object created using the InspectRawMSData function.

Usage

PerformPeakProfiling(
  rawData,
  peakParams,
  rtPlot = TRUE,
  pcaPlot = TRUE,
  labels = TRUE,
  format = "png",
  dpi = 72,
  width = 9,
  rtplot_name = "RT_adjustment",
  pcaplot_name = "PCA_plot"
)

Arguments

rawData	The object created using the InspectRawMSData function, containing the raw MS data.
peakParams	The object created using the SetPeakParam function, containing user's specified or default parameters for downstream raw MS data pre-processing.
rtPlot	Logical, if true creates a plot of retention time correction. Defaut is set to true.
pcaPlot	Logical, if true creates a PCA plot to evaluate the sample grouping. Default is set to true.
labels	Logical, if true, the PCA plot will be annotated with sample names.
format	Character, input the format of the image to create.
dpi	Numeric, input the dpi of the image to create.
width	Numeric, input the width of the image to create.
rtplot_name	Character, input the name of the RT adjustment image to create.
pcaplot_name	Character, input the name of the PCA image to create.

Author(s)

Jasmine Chong [e-mail], Mai Yamamoto [e-mail], and Jeff Xia [e-mail] McGill University, Canada License: GNU GPL (>= 2)

simscr/metaboanalyst documentation built on Jan. 21, 2020, 12:13 a.m.