ProcessingStep-class: Simple processing step class

In MSnbase: Base Functions and Classes for Mass Spectrometry and Proteomics

Description

The ProcessingStep class is a simple object to encapsule all relevant information of a data analysis processing step, i.e. the function name and all arguments.

Details

Objects of this class are mainly used to record all possible processing steps of an OnDiskMSnExp object for later lazy execution.

Objects from the Class

Objects can be created by calls of the form new("ProcessingStep",...) or using the ProcessingStep constructor function.

Slots

FUN:

The function name to be executed as a character string.

ARGS:

A named list with all arguments to the function.

Methods and functions

executeProcessingStep(object, ...)

Execute the processing step object. Internally this calls do.call passing all arguments defined in the ProcessingStep object along with potential additional arguments in ... to the function object@FUN.

Extends

Class "Versioned", directly.

Author(s)

Johannes Rainer <[e-mail]>

See Also

OnDiskMSnExp

Examples

## Define a simple ProcessingStep
procS <- ProcessingStep("sum", list(c(1, 3, NA, 5), na.rm= TRUE))

executeProcessingStep(procS)

MSnbase documentation built on Jan. 23, 2021, 2 a.m.