SingleR
Reference-Based Single-Cell RNA-Seq Annotation
Bioconductor version: 3.23 · Package version: 2.14.1
Performs unbiased cell type recognition from single-cell RNA sequencing data, by leveraging reference transcriptomic datasets of pure cell types to infer the cell of origin of each single cell independently.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("SingleR") Details
| Maintainer | Aaron Lun <infinite.monkeys.with.keyboards@gmail.com> |
| Author | Dvir Aran [aut, cph], Aaron Lun [ctb, cre], Daniel Bunis [ctb], Jared Andrews [ctb], Friederike Dündar [ctb] |
| License | GPL-3 |
| URL | https://github.com/SingleR-inc/SingleR |
| Bug Reports | https://github.com/SingleR-inc/SingleR/issues |
| System Requirements | C++17 |
| Downloads rank | 6073 |
| Source branch | RELEASE_3_23 |
| biocViews | Annotation, Classification, Clustering, GeneExpression, SingleCell, Software, Transcriptomics |
Documentation
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Dependencies
Depends: SummarizedExperiment
Imports: methods, Matrix, BiocGenerics, S4Vectors, DelayedArray, stats, utils, Rcpp, beachmat (>= 2.27.3)
LinkingTo: Rcpp, beachmat, assorthead (>= 1.3.5)
Suggests: testthat, knitr, rmarkdown, BiocStyle, BiocParallel, SingleCellExperiment, scrapper (>= 1.5.16), scRNAseq, ggplot2, pheatmap, grDevices, gridExtra, viridis, celldex
Reverse dependencies
Imports Me (3): CellMentor, scTypeEval, singleCellTK
Suggests Me (5): Coralysis, scDiagnostics, scGraphVerse, sketchR, tidySingleCellExperiment