cytofast

DOI: 10.18129/B9.bioc.cytofast    

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

cytofast - A quick visualization and analysis tool for CyTOF data

Bioconductor version: Release (3.13)

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 <k.a.stam at hotmail.com>, G. Beyrend <G.Beyrend at lumc.nl>

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

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

Installation

To install this package, start R (version "4.1") 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

PDF   Reference Manual

Details

biocViews Clustering, FlowCytometry, Software, Visualization
Version 1.8.0
In Bioconductor since BioC 3.9 (R-3.6) (2.5 years)
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
Windows Binary
macOS 10.13 (High Sierra)
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

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: