PeakML.Methods.getCompleteTable {mzmatch.R}R Documentation

PeakML.Methods.getCompleteTable

Description

This function creates a list of intensities, mass and retention times tables. Data in this format are suitable for PCA analysis or similar statistical routines.

Usage

  PeakML.Methods.getCompleteTable (PeakMLData,sumintensity=FALSE)

Arguments

PeakMLData

A R object of the PeakML.Read function output.

sumintensity

If set to "TRUE" sum of all intensities is used as a matrix value for intensities table instead of intensity the max intensity of thr peak.

Details

The PeakML file format defines an open and extensible file format for storing extracted hyphenated mass spectrometry data. As such, the format will enable users to store intermediate data in a structured manner, but more importantly, to exchange data between different data analysis software. This will give complete flexible control to the users of data analysis software to cherry pick those components best suited to their needs.

The PeakML.Methods.getGroupAnnotations function allows to access attributes defined in PeakML file.

Value

List of 3 data tables.

Author(s)

Andris Jankevics (a.jankevics@rug.nl) Richard Scheltema (r.a.scheltema@rug.nl)

References

PeakML/mzMatch: A File Format, Java Library, R Library, and Tool-Chain for Mass Spectrometry Data Analysis, Richard A. Scheltema, Andris Jankevics, Ritsert C. Jansen, Morris A. Swertz, Rainer Breitling, Analytical Chemistry, 2011 83 (7), 2786-2793.

See Also

PeakML.Read


[Package mzmatch.R version 2.0-6 Index]