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Bioconductor - FuseSOM (development version)

FuseSOM

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

A Correlation Based Multiview Self Organizing Maps Clustering For IMC Datasets

Bioconductor version: Development (3.22)

A correlation-based multiview self-organizing map for the characterization of cell types in highly multiplexed in situ imaging cytometry assays (`FuseSOM`) is a tool for unsupervised clustering. `FuseSOM` is robust and achieves high accuracy by combining a `Self Organizing Map` architecture and a `Multiview` integration of correlation based metrics. This allows FuseSOM to cluster highly multiplexed in situ imaging cytometry assays.

Author: Elijah Willie [aut, cre]

Maintainer: Elijah Willie <ewil3501 at uni.sydney.edu.au>

Citation (from within R, enter citation("FuseSOM")): Installation

To install this package, start R (version "4.5") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("FuseSOM")

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("FuseSOM")
Details biocViews CellBasedAssays, Clustering, SingleCell, Software, Spatial Version 1.11.0 In Bioconductor since BioC 3.16 (R-4.2) (2.5 years) License GPL-2 Depends R (>= 4.2.0) Imports psych, FCPS, analogue, coop, pheatmap, ggplotify, fastcluster, fpc, ggplot2, stringr, ggpubr, proxy, cluster, diptest, methods, SummarizedExperiment, stats, S4Vectors System Requirements URL Bug Reports https://github.com/ecool50/FuseSOM/issues See More Package Archives

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

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