Extract a stratified sample of an MSnSet

This function extracts a stratified sample of an MSnSet.

sampleMSnSet(object, fcol = "markers", size = 0.2, seed)

Arguments

object

An instance of class MSnSet

fcol

The feature meta-data column name containing the marker (vector or matrix) definitions on which the MSnSet will be stratified. Default is markers.

size

The size of the stratified sample to be extracted. Default is 0.2 (20 percent).

seed

The optional random number generator seed.

Value

A stratified sample (according to the defined fcol) which is an instance of class "MSnSet".

See also

testMSnSet unknownMSnSet markerMSnSet. See markers for details about markers encoding.

Author

Lisa Breckels

Examples

library(pRolocdata)
data(tan2009r1)
dim(tan2009r1)
#> [1] 888   4
smp <- sampleMSnSet(tan2009r1, fcol = "markers")
#> Warning: New sample contains classes with < 6 markers
dim(smp)
#> [1] 182   4
getMarkers(tan2009r1)
#> organelleMarkers
#>  Cytoskeleton            ER         Golgi      Lysosome       Nucleus 
#>             7            28            13             8            21 
#>            PM    Peroxisome    Proteasome  Ribosome 40S  Ribosome 60S 
#>            34             4            15            20            32 
#> mitochondrion       unknown 
#>            29           677 
getMarkers(smp)
#> organelleMarkers
#>  Cytoskeleton            ER         Golgi      Lysosome       Nucleus 
#>             2             6             3             2             5 
#>            PM    Peroxisome    Proteasome  Ribosome 40S  Ribosome 60S 
#>             7             1             3             4             7 
#> mitochondrion       unknown 
#>             6           136