MALDIquant: trim-methods – R documentation

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trim-methods

Trim an AbstractMassObject object.

Description

This method trims an AbstractMassObject object. That is useful if some mass ranges should be excluded from further analysis.

Usage

## S4 method for signature 'AbstractMassObject,numeric'
trim(object, range)
## S4 method for signature 'list,numeric'
trim(object, range, ...)
## S4 method for signature 'list,missing'
trim(object, range, ...)

Arguments

`object`	`AbstractMassObject` object or a `list` of `AbstractMassObject` objects.
`range`	`numeric`, limits of trimming (left/minimal mass, right/maximal mass). If missing it is automatically determined (largest overlapping mass range) for a `list` of `AbstractMassObject`.
`...`	arguments to be passed to underlying functions (currently only `mc.cores` is supported).

Author(s)

Sebastian Gibb mail@sebastiangibb.de

Examples

## load package
library("MALDIquant")

## load example data
data("fiedler2009subset", package="MALDIquant")

## select only one spectrum
s <- fiedler2009subset[[1]]

## remove all mass lower 3000
trim(s, range=c(3000, Inf))

## remove all mass higher 8000
trim(s, range=c(0, 8000))

## remove all mass lower 3000 and higher 8000
trim(s, range=c(3000, 8000))

## choose largest overlapping mass range for all spectra
trim(fiedler2009subset)

MALDIquant

Quantitative Analysis of Mass Spectrometry Data

v1.19.3

GPL (>= 3)

Authors

Sebastian Gibb [aut, cre] (<https://orcid.org/0000-0001-7406-4443>), Korbinian Strimmer [ths] (<https://orcid.org/0000-0001-7917-2056>)

Initial release

2019-05-12