This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see flowWorkspace.
Bioconductor version: 3.7
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")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("flowWorkspace")
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("flowWorkspace")
HTML | R Script | flowWorkspace Introduction: A Package to store and maninpulate gated flow data |
HTML | R Script | How to merge GatingSets |
HTML | R Script | How to plot gated data |
Reference Manual | ||
Text | NEWS | |
Text | INSTALL |
biocViews | DataImport, DataRepresentation, FlowCytometry, Preprocessing, Software |
Version | 3.28.2 |
In Bioconductor since | BioC 2.9 (R-2.14) (7 years) |
License | Artistic-2.0 |
Depends | R (>= 2.16.0), flowCore(>= 1.45.14), ncdfFlow(>= 2.25.4) |
Imports | Biobase, BiocGenerics, graph, graphics, grDevices, lattice, methods, stats, stats4, utils, RBGL, XML, tools, gridExtra, Rgraphviz, data.table, dplyr, latticeExtra, Rcpp, RColorBrewer, stringr, scales, flowViz, matrixStats |
LinkingTo | Rcpp, BH (>= 1.62.0-1), RProtoBufLib, cytolib(>= 1.1.3) |
Suggests | testthat, flowWorkspaceData, knitr, ggcyto, parallel |
SystemRequirements | xml2, GNU make, C++11 |
Enhances | |
URL | |
Depends On Me | flowStats, ggcyto, openCyto, QUALIFIER |
Imports Me | CytoML, flowDensity, openCyto, QUALIFIER |
Suggests Me | COMPASS, flowClust, flowCore |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | flowWorkspace_3.28.2.tar.gz |
Windows Binary | flowWorkspace_3.28.2.zip (32- & 64-bit) |
Mac OS X 10.11 (El Capitan) | flowWorkspace_3.28.2.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/flowWorkspace |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/flowWorkspace |
Package Short Url | http://bioconductor.org/packages/flowWorkspace/ |
Package Downloads Report | Download Stats |
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