flowWorkspace
This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see flowWorkspace.
Infrastructure for representing and interacting with the gated cytometry
Bioconductor version: 3.6
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("flowWorkspace")):
Installation
To install this package, start R (version "3.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("flowWorkspace")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual | |
| NEWS | Text |
| INSTALL | Text |
Details
| biocViews | DataImport, DataRepresentation, FlowCytometry, Preprocessing, Software |
| Version | 3.26.9 |
| In Bioconductor since | BioC 2.9 (R-2.14) (12.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 2.16.0), flowCore(>= 1.39.9), ncdfFlow(>= 2.19.5) |
| 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 |
| System Requirements | xml2, GNU make, C++11 |
| URL |
See More
| Suggests | testthat, flowWorkspaceData, RSVGTipsDevice, knitr, ggcyto, parallel |
| Linking To | Rcpp, BH (>= 1.62.0-1), RProtoBufLib, cytolib(>= 0.99.6) |
| Enhances | |
| Depends On Me | flowStats, ggcyto, openCyto, QUALIFIER |
| Imports Me | CytoML, flowDensity, openCyto, QUALIFIER |
| Suggests Me | COMPASS, flowClust, flowCore |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | flowWorkspace_3.26.9.tar.gz |
| Windows Binary | flowWorkspace_3.26.9.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | flowWorkspace_3.26.9.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 | https://bioconductor.org/packages/flowWorkspace/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.6 | Source Archive |