MALDIquant (version 1.4)

findEmptyMassObjects: Finds or removes empty AbstractMassObject objects in a list.

Description

These functions looks for empty AbstractMassObject objects in a list.

Usage

findEmptyMassObjects(l)
removeEmptyMassObjects(l)

Arguments

l

list, list of AbstractMassObject where empty objects should be found or removed.

Value

• findEmptyMassObjects: Returns a vector of indices referring to empty AbstractMassObject objects.

  removeEmptyMassObjects: Returns a list of AbstractMassObject objects but without empty ones.

References

See website: http://strimmerlab.org/software/maldiquant/

See Also

isEmpty,AbstractMassObject-method, AbstractMassObject

Examples

## load library
library("MALDIquant");

## create list
peakList <- list();

## create two MassPeaks objects and add them to the list
peakList[[1]] <- createMassPeaks(mass=1:100, intensity=1:100,
                                 metaData=list(name="example 1"));
peakList[[2]] <- createMassPeaks(mass=1:100, intensity=1:100,
                                 metaData=list(name="example 2"));

## find empty objects (there should not be any one)
findEmptyMassObjects(peakList);

## add an empty MassPeaks object to the list
peakList[[3]] <- createMassPeaks(mass=double(), intensity=double(),
                                 metaData=list(name="empty MassPeaks object"));

## look for empty objects (isEmptyIdx == 3)
(isEmptyIdx <- findEmptyMassObjects(peakList));

## to remove all empty MassObjects from a list
length(peakList); ## 3
peakList <- removeEmptyMassObjects(peakList);
length(peakList); ## 2; WARNING: all indices could changed