FlowSOM
Using self-organizing maps for visualization and interpretation of cytometry data
Bioconductor version: Release (3.19)
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 "4.4") 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 | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | CellBasedAssays, CellBiology, Clustering, FlowCytometry, Software, Visualization |
| Version | 2.12.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (9.5 years) |
| License | GPL (>= 2) |
| Depends | R (>= 4.0), igraph |
| Imports | stats, utils, colorRamps, ConsensusClusterPlus, dplyr, flowCore, ggforce, ggnewscale, ggplot2, ggpubr, grDevices, magrittr, methods, rlang, Rtsne, tidyr, BiocGenerics, XML |
| System Requirements | |
| URL | http://www.r-project.org http://dambi.ugent.be |
See More
| Suggests | BiocStyle, testthat, CytoML, flowWorkspace, ggrepel, scattermore, pheatmap, ggpointdensity |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | CATALYST, diffcyt |
| Suggests Me | HDCytoData |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | FlowSOM_2.12.0.tar.gz |
| Windows Binary (x86_64) | FlowSOM_2.12.0.zip (64-bit only) |
| macOS Binary (x86_64) | FlowSOM_2.12.0.tgz |
| macOS Binary (arm64) | FlowSOM_2.12.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/FlowSOM |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/FlowSOM |
| Bioc Package Browser | https://code.bioconductor.org/browse/FlowSOM/ |
| Package Short Url | https://bioconductor.org/packages/FlowSOM/ |
| Package Downloads Report | Download Stats |