ggcyto

DOI: 10.18129/B9.bioc.ggcyto    

This is the development version of ggcyto; for the stable release version, see ggcyto.

Visualize Cytometry data with ggplot

Bioconductor version: Development (3.8)

With the dedicated fortify method implemented for flowSet, ncdfFlowSet and GatingSet classes, both raw and gated flow cytometry data can be plotted directly with ggplot. ggcyto wrapper and some customed layers also make it easy to add gates and population statistics to the plot.

Author: Mike Jiang

Maintainer: Mike Jiang <wjiang2 at fhcrc.org>

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

Installation

To install this package, start R and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("ggcyto", version = "devel")

Documentation

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

browseVignettes("ggcyto")

 

HTML R Script Feature summary of ggcyto
HTML R Script Quick plot for cytometry data
HTML R Script Visualize flowSet with ggcyto
HTML R Script Visualize GatingSet with ggcyto
PDF   Reference Manual
Text   NEWS

Details

biocViews CellBasedAssays, FlowCytometry, Infrastructure, Software, Visualization
Version 1.9.12
In Bioconductor since BioC 3.3 (R-3.3) (2.5 years)
License Artistic-2.0
Depends methods, ggplot2 (>= 2.2.1.9000), flowCore(>= 1.41.5), ncdfFlow(>= 2.17.1), flowWorkspace(>= 3.17.24)
Imports plyr, scales, data.table, RColorBrewer, gridExtra, rlang
LinkingTo
Suggests testthat, flowWorkspaceData, knitr, rmarkdown, flowStats, openCyto, flowViz, ggridges, vdiffr
SystemRequirements
Enhances
URL https://github.com/RGLab/ggcyto/issues
Depends On Me
Imports Me CytoML
Suggests Me flowCore, flowWorkspace, openCyto
Links To Me
Build Report  

Package Archives

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

Source Package ggcyto_1.9.12.tar.gz
Windows Binary ggcyto_1.9.12.zip
Mac OS X 10.11 (El Capitan) ggcyto_1.9.12.tgz
Source Repository git clone https://git.bioconductor.org/packages/ggcyto
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ggcyto
Package Short Url http://bioconductor.org/packages/ggcyto/
Package Downloads Report Download Stats

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