cytofast

DOI: 10.18129/B9.bioc.cytofast    

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see cytofast.

cytofast - A quick visualization and analysis tool for CyTOF data

Bioconductor version: 3.10

Multi-parametric flow and mass cytometry allows exceptional high-resolution exploration of the cellular composition of the immune system. Together with tools like FlowSOM and Cytosplore it is possible to identify novel cell types. By introducing cytofast we hope to offer a workflow for visualization and quantification of cell clusters for an efficient discovery of cell populations associated with diseases or other clinical outcomes.

Author: K.A. Stam [aut, cre], G. Beyrend [aut]

Maintainer: K.A. Stam <k.a.stam at hotmail.com>

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("cytofast")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("cytofast")

 

HTML	R Script	Spitzer
PDF		Reference Manual
Text		NEWS

Details

biocViews	Clustering, FlowCytometry, Software, Visualization
Version	1.2.0
In Bioconductor since	BioC 3.9 (R-3.6) (1 year)
License	GPL-3
Depends	R (>= 3.6.0)
Imports	flowCore, ggplot2, ggridges, RColorBrewer, reshape2, stats, grDevices, Rdpack, methods, grid, FlowSOM
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	cytofast_1.2.0.tar.gz
Windows Binary	cytofast_1.2.0.zip
Mac OS X 10.11 (El Capitan)	cytofast_1.2.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/cytofast
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/cytofast
Package Short Url	https://bioconductor.org/packages/cytofast/
Package Downloads Report	Download Stats