Package: UCell 2.17.0

Massimo Andreatta

UCell: Rank-based signature enrichment analysis for single-cell data

UCell is a package for evaluating gene signatures in single-cell datasets. UCell signature scores, based on the Mann-Whitney U statistic, are robust to dataset size and heterogeneity, and their calculation demands less computing time and memory than other available methods, enabling the processing of large datasets in a few minutes even on machines with limited computing power. UCell can be applied to any single-cell data matrix, and includes functions to directly interact with SingleCellExperiment and Seurat objects.

Authors:Massimo Andreatta [aut, cre], Santiago Carmona [aut]

UCell_2.17.0.tar.gz
UCell_2.17.0.zip(r-4.7)UCell_2.17.0.zip(r-4.6)UCell_2.17.0.zip(r-4.5)
UCell_2.17.0.tgz(r-4.6-any)UCell_2.17.0.tgz(r-4.5-any)
UCell_2.17.0.tar.gz(r-4.7-any)UCell_2.17.0.tar.gz(r-4.6-any)
UCell_2.17.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html
card.svg |card.png
UCell/json (API)
NEWS

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

Bug tracker:https://github.com/carmonalab/ucell/issues

Datasets:

On BioConductor:UCell-2.17.0(bioc 3.24)UCell-2.16.0(bioc 3.23)

singlecellgenesetenrichmenttranscriptomicsgeneexpressioncellbasedassays

10.62 score 196 stars 2 packages 736 scripts 4 exports 32 dependencies

Last updated from:15b029a9bf. Checks:7 WARNING, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
linux-devel-x86_64WARNING315
source / vignettesOK761
linux-release-x86_64WARNING423
macos-release-arm64WARNING233
macos-oldrel-arm64WARNING183
windows-develWARNING1435
windows-releaseWARNING1468
windows-oldrelWARNING1376
wasm-releaseOK222

Exports:AddModuleScore_UCellScoreSignatures_UCellSmoothKNNStoreRankings_UCell

Dependencies:abindassortheadbeachmatBHBiobaseBiocGenericsBiocNeighborsBiocParallelcodetoolscpp11data.tableDelayedArrayformatRfutile.loggerfutile.optionsgenericsGenomicRangesIRangeslambda.rlatticeMatrixMatrixGenericsmatrixStatsRcppS4ArraysS4VectorsSeqinfoSingleCellExperimentsnowSparseArraySummarizedExperimentXVector

Gene signature scoring with UCell

Rendered fromUCell_vignette_basic.Rmdusingknitr::rmarkdownon May 29 2026.

Last update: 2025-10-01
Started: 2022-02-03

Using UCell with SingleCellExperiment

Rendered fromUCell_sce.Rmdusingknitr::rmarkdownon May 29 2026.

Last update: 2025-10-01
Started: 2022-08-05

Using UCell with Seurat

Rendered fromUCell_Seurat.Rmdusingknitr::rmarkdownon May 29 2026.

Last update: 2025-10-01
Started: 2022-08-05

Some important parameters for UCell

Rendered fromUCell_parameters.Rmdusingknitr::rmarkdownon May 29 2026.

Last update: 2025-10-01
Started: 2025-10-01