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-4.5)clustree_0.5.1.zip(r-4.4)clustree_0.5.1.zip(r-4.3)
clustree_0.5.1.tgz(r-4.4-any)clustree_0.5.1.tgz(r-4.3-any)
clustree_0.5.1.tar.gz(r-4.5-noble)clustree_0.5.1.tar.gz(r-4.4-noble)
clustree_0.5.1.tgz(r-4.4-emscripten)clustree_0.5.1.tgz(r-4.3-emscripten)
clustree.pdf |clustree.html
clustree/json (API)
NEWS

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

Peer review:

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

Datasets:

On CRAN:

clusteringclustering-treesvisualisationvisualization

2 exports 209 stars 5.80 score 55 dependencies 3 dependents 8 mentions 1.7k scripts 3.0k downloads

Last updated 10 months agofrom:24900bdf45. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKSep 03 2024
R-4.5-winOKSep 03 2024
R-4.5-linuxOKSep 03 2024
R-4.4-winOKSep 03 2024
R-4.4-macOKSep 03 2024
R-4.3-winOKSep 03 2024
R-4.3-macOKSep 03 2024

Exports:clustreeclustree_overlay

Dependencies:backportscachemcheckmateclicolorspacecpp11dplyrfansifarverfastmapgenericsggforceggplot2ggraphggrepelgluegraphlayoutsgridExtragtableigraphisobandlabelinglatticelifecyclemagrittrMASSMatrixmemoisemgcvmunsellnlmepillarpkgconfigpolyclippurrrR6RColorBrewerRcppRcppArmadilloRcppEigenrlangscalesstringistringrsystemfontstibbletidygraphtidyrtidyselecttweenrutf8vctrsviridisviridisLitewithr

Plotting clustering trees

Rendered fromclustree.Rmdusingknitr::rmarkdownon Sep 03 2024.

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