Package: FuseSOM 1.15.0

Elijah Willie

FuseSOM: A Correlation Based Multiview Self Organizing Maps Clustering For IMC Datasets

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.

Authors:Elijah Willie [aut, cre]

FuseSOM_1.15.0.tar.gz
FuseSOM_1.15.0.zip(r-4.7)FuseSOM_1.15.0.zip(r-4.6)FuseSOM_1.15.0.zip(r-4.5)
FuseSOM_1.15.0.tgz(r-4.6-x86_64)FuseSOM_1.15.0.tgz(r-4.6-arm64)FuseSOM_1.15.0.tgz(r-4.5-x86_64)FuseSOM_1.15.0.tgz(r-4.5-arm64)
FuseSOM_1.15.0.tar.gz(r-4.7-arm64)FuseSOM_1.15.0.tar.gz(r-4.7-x86_64)FuseSOM_1.15.0.tar.gz(r-4.6-arm64)FuseSOM_1.15.0.tar.gz(r-4.6-x86_64)
FuseSOM_1.15.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
FuseSOM/json (API)
NEWS

# Install 'FuseSOM' in R:
install.packages('FuseSOM', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/ecool50/fusesom/issues

Datasets:
  • risom_dat - IMC Breast Cancer Data Data from A spatial atlas of breast cancer progression using MIBI-TOF and tissue transcriptomics

On BioConductor:FuseSOM-1.15.0(bioc 3.24)FuseSOM-1.14.0(bioc 3.23)

singlecellcellbasedassaysclusteringspatial

4.89 score 1 stars 26 scripts 338 downloads 8 exports 127 dependencies

Last updated from:e6e84914d8. Checks:1 NOTE, 13 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE198
linux-devel-arm64OK261
linux-devel-x86_64OK307
source / vignettesOK272
linux-release-arm64OK261
linux-release-x86_64OK355
macos-release-arm64OK180
macos-release-x86_64OK326
macos-oldrel-arm64OK200
macos-oldrel-x86_64OK422
windows-develOK234
windows-releaseOK246
windows-oldrelOK196
wasm-releaseOK136

Exports:clusterPrototypescomputeGridSizeestimateNumClustergeneratePrototypesmarkerHeatmapnormaliseDataoptiPlotrunFuseSOM

Dependencies:abindanaloguebackportsBiobaseBiocGenericsbootbrglmbroomcarcarDataclasscliclustercolorspacecoopcorrplotcowplotcpp11DataVisualizationsDelayedArrayDEoptimRDerivdigestdiptestdoBydplyrfarverfastclusterFCPSflexmixforecastFormulafpcfracdifffsgenericsGenomicRangesggplot2ggplotifyggpubrggrepelggsciggsignifglueGPArotationgridExtragridGraphicsgtableIRangesisobandkernlablabelinglatticelifecyclelme4lmtestmagrittrMASSMatrixMatrixGenericsMatrixModelsmatrixStatsmclustmgcvmicrobenchmarkminqamnormtmodelrmodeltoolsnlmenloptrnnetnumDerivpbkrtestpermutepheatmappillarpkgconfigplyrpolynomprabcluspracmaprincurveprofileModelproxypsychpurrrquantregR6rappdirsrbibutilsRColorBrewerRcppRcppArmadilloRcppEigenRcppParallelRdpackreformulasreshape2rlangrobustbaserstatixS4ArraysS4VectorsS7scalesSeqinfospSparseArraySparseMstringistringrSummarizedExperimentsurvivaltibbletidyrtidyselecttimeDateurcautf8vctrsveganviridisLitewithrXVectoryulab.utilszoo

FuseSOM package manual

Elijah Willie

Rendered fromIntroduction.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2022-10-05
Started: 2022-06-22