openCyto

DOI: 10.18129/B9.bioc.openCyto    

Hierarchical Gating Pipeline for flow cytometry data

Bioconductor version: Release (3.6)

This package is designed to facilitate the automated gating methods in sequential way to mimic the manual gating strategy.

Author: Mike Jiang, John Ramey, Greg Finak, Raphael Gottardo

Maintainer: Mike Jiang <wjiang2 at fhcrc.org>

Installation

To install this package, start R and enter:

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

Documentation

HTML	R Script	An Introduction to the openCyto package
HTML	R Script	How to use different auto gating functions
HTML	R Script	How to write a csv gating template
PDF		Reference Manual
Text		NEWS

Details

biocViews	DataImport, DataRepresentation, FlowCytometry, Preprocessing, Software
Version	1.16.1
In Bioconductor since	BioC 2.13 (R-3.0) (4.5 years)
License	Artistic-2.0
Depends	flowWorkspace(>= 3.17.43)
Imports	methods, Biobase, gtools, flowCore(>= 1.31.17), flowViz, ncdfFlow(>= 2.11.34), flowWorkspace, flowStats(>= 3.29.1), flowClust(>= 3.11.4), MASS, clue, plyr, RBGL, graph, data.table, ks, RColorBrewer, lattice, rrcov, R.utils
LinkingTo	Rcpp
Suggests	flowWorkspaceData, knitr, testthat, utils, tools, parallel, ggcyto
SystemRequirements
Enhances
URL
Depends On Me
Imports Me	CytoML
Suggests Me	flowCore, ggcyto
Build Report

Package Archives

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

Source Package	openCyto_1.16.1.tar.gz
Windows Binary	openCyto_1.16.1.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	openCyto_1.16.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/openCyto
Package Short Url	http://bioconductor.org/packages/openCyto/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.6	Source Archive