UCell
This is the development version of UCell; for the stable release version, see UCell.
Rank-based signature enrichment analysis for single-cell data
Bioconductor version: Development (3.19)
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>
citation("UCell")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("UCell")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
Reference Manual |
Details
biocViews | CellBasedAssays, GeneExpression, GeneSetEnrichment, SingleCell, Software, Transcriptomics |
Version | 2.7.7 |
In Bioconductor since | BioC 3.15 (R-4.2) (2 years) |
License | GPL-3 + file LICENSE |
Depends | R (>= 4.3.0) |
Imports | methods, data.table (>= 1.13.6), Matrix, stats, BiocParallel, BiocNeighbors, SingleCellExperiment, SummarizedExperiment |
System Requirements | |
URL | https://github.com/carmonalab/UCell |
Bug Reports | https://github.com/carmonalab/UCell/issues |
See More
Suggests | scater, scRNAseq, reshape2, patchwork, ggplot2, BiocStyle, Seurat (>= 5.0.0), SeuratObject (>= 5.0.0), knitr, rmarkdown |
Linking To | |
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Depends On Me | |
Imports Me | escape |
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Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | |
Windows Binary | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/UCell |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/UCell |
Package Short Url | https://bioconductor.org/packages/UCell/ |
Package Downloads Report | Download Stats |