Package: clustree 0.5.1

clustree: Visualise Clusterings at Different Resolutions

Deciding what resolution to use can be a difficult question when approaching a clustering analysis. One way to approach this problem is to look at how samples move as the number of clusters increases. This package allows you to produce clustering trees, a visualisation for interrogating clusterings as resolution increases.

Authors:Luke Zappia [aut, cre], Alicia Oshlack [aut], Andrea Rau [ctb], Paul Hoffman [ctb]

clustree_0.5.1.tar.gz
clustree_0.5.1.zip(r-4.7)clustree_0.5.1.zip(r-4.6)clustree_0.5.1.zip(r-4.5)
clustree_0.5.1.tgz(r-4.6-any)clustree_0.5.1.tgz(r-4.5-any)
clustree_0.5.1.tar.gz(r-4.7-any)clustree_0.5.1.tar.gz(r-4.6-any)
clustree_0.5.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html
card.svg |card.png
clustree/json (API)
NEWS

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

Bug tracker:https://github.com/lazappi/clustree/issues

Pkgdown/docs site:https://lazappi.github.io

Datasets:

On CRAN:

Conda:

clusteringclustering-treesvisualisationvisualization

11.85 score 258 stars 5 packages 3.2k scripts 4.7k downloads 8 mentions 2 exports 52 dependencies

Last updated from:24900bdf45. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK236
source / vignettesOK300
linux-release-x86_64OK200
macos-release-arm64OK129
macos-oldrel-arm64OK130
windows-develOK274
windows-releaseOK149
windows-oldrelOK145
wasm-releaseOK167

Exports:clustreeclustree_overlay

Dependencies:backportsbase64enccachemcheckmateclicpp11dplyrfarverfastmapgenericsggforceggplot2ggraphggrepelgluegraphlayoutsgridExtragtableigraphisobandjsonlitelabelinglatticelifecyclemagrittrMASSMatrixmemoisepillarpkgconfigpolyclippurrrR6RColorBrewerRcppRcppArmadillorlangS7scalesstringistringrsystemfontstibbletidygraphtidyrtidyselecttweenrutf8vctrsviridisviridisLitewithr

Plotting clustering trees

Rendered fromclustree.Rmdusingknitr::rmarkdownon Jun 04 2026.

Last update: 2023-11-05
Started: 2018-01-22

Readme and manuals

Help Manual

Help pageTopics
Clustreeclustree-package
Plot a clustering treeclustree clustree.data.frame clustree.matrix clustree.Seurat clustree.seurat clustree.SingleCellExperiment
Overlay a clustering treeclustree_overlay clustree_overlay.data.frame clustree_overlay.matrix clustree_overlay.Seurat clustree_overlay.seurat clustree_overlay.SingleCellExperiment
Clustered NBA positions datasetnba_clusts
Simulated scRNA-seq datasetsc_example