citrus.exportCluster: Exports cluster events to file

In nolanlab/citrus: Citrus: Identification of stratifying subpopulations in Flow Cytometry Data.

Exports cluster events to file

Description

Exports cluster events from each file

Usage

citrus.exportCluster(clusterId, citrus.clustering, citrus.combinedFCSSet,
  outputDirectory, conditions = NULL)

Arguments

clusterId	ID of cluster to be exported
citrus.clustering	citrus.clustering object to export clusters from.
citrus.combinedFCSSet	citrus.combinedFCSSet object that contains data to be exported.
outputDirectory	Where cluster data should be exported to.
conditions	If not NULL, only export data from the specified conditions.

Author(s)

Robert Bruggner

Examples

# Where the data lives
dataDirectory = file.path(system.file(package = "citrus"),"extdata","example1")

# Create list of files to be analyzed
fileList = data.frame("unstim"=list.files(dataDirectory,pattern=".fcs"))

# Read the data
citrus.combinedFCSSet = citrus.readFCSSet(dataDirectory,fileList)

# List of columns to be used for clustering
clusteringColumns = c("Red","Blue")

# Cluster data
citrus.clustering = citrus.cluster(citrus.combinedFCSSet,clusteringColumns)

# Export Cluster
# citrus.exportCluster(clusterId=19500,citrus.clustering,citrus.combinedFCSSset,outputDirectory="/PATH/TO/DIRECTORY/")

nolanlab/citrus documentation built on April 19, 2024, 6:49 p.m.