tsMSdata-class: Class for representing MS data

In TargetSearch: A package for the analysis of GC-MS metabolite profiling data

Description

This is a class to represent MS data obtained from the sample.

Details

The method as.list converts every slot (RI, RT, and Intensity) of a tsMSdata object into a matrix. The converted matrices are stored in a list. Each converted matrix has an attribute called 'index' that relates the metabolite index with the respective rows. The components of the resulting list are named as the slots. If the slot RT is not defined or empty, then the output list will have only two components. ('RT' and 'Intensity').

Objects from the Class

Objects be created by calls of the form

Slots

RI:

"list", a list containing an RI matrix, one matrix per metabolite

RT:

"list", a list containing an RT matrix, one matrix per metabolite

Intensity:

"list", a list containing a peak intensity matrix, one matrix per metabolite

Methods

Intensity

signature(obj = "tsMSdata"): gets the peak intensity list.

Intensity<-

signature(obj = "tsMSdata"): gets the peak intensity list.

retIndex

signature(obj = "tsMSdata"): gets RT list.

retIndex<-

signature(obj = "tsMSdata"): sets the RI list.

retTime

signature(obj = "tsMSdata"): gets the RT list.

retTime<-

signature(obj = "tsMSdata"): sets the RT list.

show

signature(object = "tsMSdata"): show function.

as.list

signature(object = "tsMSdata"): coerce a list object. See details

Author(s)

Alvaro Cuadros-Inostroza, Matthew Hannah, Henning Redestig

See Also

FindPeaks, peakFind

Examples

showClass("tsMSdata")

TargetSearch documentation built on March 12, 2021, 2 a.m.