flowWorkspace

Import flowJo Workspaces into BioConductor and replicate flowJo gating with flowCore

Bioconductor version: Release (2.14)

This package is designed to facilitate comparison of automated gating methods against manual gating done in flowJo. This package allows you to import basic flowJo workspaces into BioConductor and replicate the gating from flowJo using the flowCore functionality. Gating hierarchies, groups of samples, compensation, and transformation are performed so that the output matches the flowJo analysis.

Author: Greg Finak, Mike Jiang

Maintainer: Greg Finak <gfinak at fhcrc.org>,Mike Jiang <wjiang2 at fhcrc.org>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("flowWorkspace")

To cite this package in a publication, start R and enter:

    citation("flowWorkspace")

Documentation

PDF R Script Importing flowJo Workspaces into R
PDF   Reference Manual
Text   NEWS
Text   INSTALL

Details

biocViews DataImport, DataRepresentation, FlowCytometry, Preprocessing, Software
Version 3.10.0
In Bioconductor since BioC 2.9 (R-2.14)
License Artistic-2.0
Depends R (>= 2.16.0), flowCore, flowViz, ncdfFlow, gridExtra
Imports Biobase, BiocGenerics, graph, graphics, lattice, methods, stats, stats4, utils, RBGL, graph, XML, Biobase, IDPmisc, Cairo, tools, hexbin, gridExtra, Rgraphviz, data.table, plyr, latticeExtra, Rcpp, RSVGTipsDevice
Suggests testthat, flowWorkspaceData
System Requirements
URL
Depends On Me flowStats, openCyto, QUALIFIER
Imports Me QUALIFIER
Suggests Me COMPASS

Package Downloads

Package Source flowWorkspace_3.10.0.tar.gz
Windows Binary flowWorkspace_3.10.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) flowWorkspace_3.10.0.tgz
Mac OS X 10.9 (Mavericks)
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