FlowSOM

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see FlowSOM.

Using self-organizing maps for visualization and interpretation of cytometry data

Bioconductor version: 3.14

FlowSOM offers visualization options for cytometry data, by using Self-Organizing Map clustering and Minimal Spanning Trees.

Author: Sofie Van Gassen [aut, cre], Artuur Couckuyt [aut], Katrien Quintelier [aut], Annelies Emmaneel [aut], Britt Callebaut [aut], Yvan Saeys [aut]

Maintainer: Sofie Van Gassen <sofie.vangassen at ugent.be>

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

Installation

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


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("FlowSOM")

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("FlowSOM")

FlowSOM PDF R Script

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews CellBasedAssays, CellBiology, Clustering, FlowCytometry, Software, Visualization

Version 2.2.0

In Bioconductor since BioC 3.1 (R-3.2) (9 years)

License GPL (>= 2)

Depends R (>= 4.0), igraph

Imports stats, utils, BiocGenerics, colorRamps, ConsensusClusterPlus, CytoML, dplyr, flowCore, flowWorkspace, ggforce, ggnewscale, ggplot2, ggpointdensity, ggpubr, ggrepel, grDevices, magrittr, methods, pheatmap, RColorBrewer, rlang, Rtsne, tidyr, XML, scattermore

System Requirements

URL http://www.r-project.org http://dambi.ugent.be

Suggests BiocStyle, testthat

Linking To

Enhances

Depends On Me

Imports Me CATALYST, CytoTree, diffcyt, MetaCyto

Suggests Me HDCytoData

Links To Me

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