To install this package, start R and enter:

## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("flowWorkspace")

In most cases, you don't need to download the package archive at all.

flowWorkspace

Import flowJo Workspaces into BioConductor and replicate flowJo gating with flowCore

Bioconductor version: 3.1

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>

Citation (from within R, enter citation("flowWorkspace")):

Installation

To install this package, start R and enter:

## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("flowWorkspace")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("flowWorkspace")

PDF	R Script	Importing flowJo Workspaces into R
HTML	R Script	How to merge GatingSets
HTML	R Script	How to plot gated data
PDF		Reference Manual
Text		NEWS
Text		INSTALL

Details

biocViews	DataImport, DataRepresentation, FlowCytometry, Preprocessing, Software
Version	3.14.9
In Bioconductor since	BioC 2.9 (R-2.14) (4 years)
License	Artistic-2.0
Depends	R (>= 2.16.0), flowCore(>= 1.33.13), flowViz(>= 1.29.27), ncdfFlow(>= 2.13.04), gridExtra
Imports	Biobase, BiocGenerics, graph, graphics, lattice, methods, stats, stats4, utils, RBGL, XML, tools, gridExtra, Rgraphviz, data.table, plyr, latticeExtra, Rcpp, RColorBrewer, stringr
LinkingTo	Rcpp, BH (>= 1.58.0-1)
Suggests	testthat, flowWorkspaceData, RSVGTipsDevice, knitr
SystemRequirements	xml2, GNU make
Enhances
URL
Depends On Me	flowStats, openCyto, QUALIFIER
Imports Me	QUALIFIER
Suggests Me	COMPASS, flowCore
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source	flowWorkspace_3.14.9.tar.gz
Windows Binary	flowWorkspace_3.14.9.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	flowWorkspace_3.14.9.tgz
Mac OS X 10.9 (Mavericks)	flowWorkspace_3.14.9.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/flowWorkspace/tree/release-3.1
Package Short Url	http://bioconductor.org/packages/flowWorkspace/
Package Downloads Report	Download Stats

Documentation »

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