Last data update: 2014.03.03

 R: constructors for GatingSet
GatingSet,character,character-methodR Documentation

constructors for GatingSet

Description

construct object from xml workspace file and a list of sampleIDs (not intended to be called by user.)

construct a gatingset with empty trees (just root node)

construct object from existing gating hierarchy(gating template) and flow data

Usage

## S4 method for signature 'character,character'
GatingSet(x, y, guids, includeGates = FALSE,
  sampNloc = "keyword", xmlParserOption, wsType)

## S4 method for signature 'flowSet,ANY'
GatingSet(x)

## S4 method for signature 'GatingHierarchy,character'
GatingSet(x, y, path = ".", ...)

Arguments

x

character or flowSet or GatingHierarchy

y

character ormissing

guids

character vectors to uniquely identify each sample (Sometime FCS file names alone may not be unique)

includeGates

logical whether to parse the gates or just simply extract the flowJo stats

sampNloc

character scalar indicating where to get sampleName(or FCS filename) within xml workspace. It is either from "keyword" or "sampleNode".

xmlParserOption

integer option passed to xmlTreeParse

wsType

character workspace type, can be value of "win", "macII", "vX", "macIII".

path

character specifies the path to the flow data (FCS files)

...

other arguments. see parseWorkspace

Examples

## Not run: 
#fdata could be a flowSet or ncdfFlowSet
gs <- GatingSet(fdata)

## End(Not run)

Results


Created & Maintained by Osamu Ogasawara (osamu.ogasawara@gmail.com) and IMSBIO