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

In RGLab/ncdfFlow: ncdfFlow: A package that provides HDF5 based storage for flow cytometry data.

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.

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
library(flowStats)
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

RGLab/ncdfFlow documentation built on July 5, 2022, 10:20 a.m.