Bioconductor Code: FuseSOM (original) (raw)

FuseSOM ====================================================== A correlation based `Multiview` Self Organizing Map for the characterization of cell types in `highly multiplexed in situ imaging cytometry assays`. Overview -------- **FuseSOM** provides a pipeline for the clustering of `highly multiplexed in situ imaging cytometry assays`. This pipeline uses the `Self Organizing Map` architecture coupled with `Multiview` hierarchical clustering. We also provide functions for normalisation and estimation of the number of clusters. Installation -------- Install the Bioconductor release version. ```r if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("FuseSOM") ``` Otherwise, if you would like the most up-to-date features, install the development version. ```r if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") # The following initializes usage of Bioc devel BiocManager::install(version='devel') BiocManager::install("FuseSOM") # Or install the development version from GitHub: # install.packages("devtools") devtools::install_github("https://github.com/ecool50/FuseSOM") library(FuseSOM) ``` ### Submitting an issue or feature request `FuseSOM` is still under active development. We would greatly appreciate any and all feedback related to the package. * R package related issues should be raised [here](https://github.com/ecool50/FuseSOM/issues). * For general questions and feedback, please contact us directly via [ewil3501@uni.sydney.edu.au](mailto:ewil3501@uni.sydney.edu.au). ## Author * **Elijah Willie** * **Ellis Patrick** - [@TheEllisPatrick](https://twitter.com/TheEllisPatrick)