DOI: 10.18129/B9.bioc.UCell  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see UCell.

Rank-based signature enrichment analysis for single-cell data

Bioconductor version: 3.17

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.

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

Maintainer: Massimo Andreatta <massimo.andreatta at unil.ch>

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HTML R Script 1. Gene signature scoring with UCell
HTML R Script 2. Using UCell with SingleCellExperiment
HTML R Script 3. Using UCell with Seurat
PDF   Reference Manual
Text   NEWS


biocViews CellBasedAssays, GeneExpression, GeneSetEnrichment, SingleCell, Software, Transcriptomics
Version 2.4.0
In Bioconductor since BioC 3.15 (R-4.2) (1.5 years)
License GPL-3 + file LICENSE
Depends R (>= 4.2.0)
Imports methods, data.table (>= 1.13.6), Matrix, stats, BiocParallel, BiocNeighbors, SingleCellExperiment, SummarizedExperiment
Suggests Seurat, scater, scRNAseq, reshape2, patchwork, ggplot2, BiocStyle, knitr, rmarkdown
URL https://github.com/carmonalab/UCell
BugReports https://github.com/carmonalab/UCell/issues
Depends On Me
Imports Me escape
Suggests Me SCpubr
Links To Me
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Source Package UCell_2.4.0.tar.gz
Windows Binary UCell_2.4.0.zip
macOS Binary (x86_64) UCell_2.4.0.tgz
macOS Binary (arm64) UCell_2.4.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/UCell
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/UCell
Bioc Package Browser https://code.bioconductor.org/browse/UCell/
Package Short Url https://bioconductor.org/packages/UCell/
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