R: 'getIndices' extracts the event indices of one or multiple...

getIndices,ncdfFlowSet,character-method {ncdfFlow}

R Documentation

`getIndices` extracts the event indices of one or multiple samples from ncdfFlowSet

Description

These functions are mainly for internal usage and normally not to be used by users.

initIndices initializes the event indices for the entire ncdfFlowSet with NA

updateIndices updates the event indices of the target sample in ncdfFlowSet

Usage

## S4 method for signature 'ncdfFlowSet,character'
getIndices(obj, y)

## S4 method for signature 'ncdfFlowSet'
initIndices(obj)

## S4 method for signature 'ncdfFlowSet,character,logical'
updateIndices(obj, y, z)

Arguments

`obj`	`ncdfFlowSet` object
`y`	`character` sample name
`z`	`logical` vector to be assigned.

Value

a logical vector.

Examples

data(GvHD)
nc <- ncdfFlowSet(GvHD[1:2])
sn <- sampleNames(nc)[1]
nrow(nc[[sn]])
getIndices(nc, sn) #initial index is NA 
#subset with filter
morphGate <- norm2Filter("FSC-H", "SSC-H", filterId = "MorphologyGate",scale = 2)
nc1 <- Subset(nc, morphGate)
ind <- getIndices(nc1, sn)
all.equal(sum(ind), nrow(nc1[[sn]]))
initIndices(nc1)
getIndices(nc1, sn) #reset indices