To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("flowWorkspace")

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

flowWorkspace

This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see flowWorkspace.

Infrastructure for representing and interacting with the gated cytometry

Bioconductor version: 3.4

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:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("flowWorkspace")

Documentation

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 3.20.5
In Bioconductor since BioC 2.9 (R-2.14) (5.5 years)
License Artistic-2.0
Depends R (>= 2.16.0), flowCore(>= 1.39.9), ncdfFlow(>= 2.19.5)
Imports Biobase, BiocGenerics, graph, graphics, lattice, methods, stats, stats4, utils, RBGL, XML, tools, gridExtra, Rgraphviz, data.table, dplyr, latticeExtra, Rcpp, RColorBrewer, stringr, scales, flowViz
LinkingTo Rcpp, BH (>= 1.62.0-1)
Suggests testthat, flowWorkspaceData, RSVGTipsDevice, knitr, ggcyto
SystemRequirements xml2, GNU make
Enhances
URL
Depends On Me flowStats, ggcyto, openCyto, QUALIFIER
Imports Me CytoML, openCyto, QUALIFIER
Suggests Me COMPASS, flowClust, flowCore
Build Report

Package Archives

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

Package Source flowWorkspace_3.20.5.tar.gz
Windows Binary flowWorkspace_3.20.5.zip (32- & 64-bit)
Mac OS X 10.9 (Mavericks) flowWorkspace_3.20.5.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/flowWorkspace/tree/release-3.4
Package Short Url http://bioconductor.org/packages/flowWorkspace/
Package Downloads Report Download Stats

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