SingleCellSignalR
Cell Signalling Using Single-Cell RNA-seq or Proteomics Data
Bioconductor version: 3.24 · Package version: 2.3.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
Inference of ligand-receptor (L-R) interactions from single-cell expression (transcriptomics/proteomics) data. SingleCellSignalR v2 inferences rely on the statistical model we introduced in the BulkSignalR package as well as the original SingleCellSignalR LR-score (both are available). SingleCellSignalR v2 can be regarded as a wrapper to BulkSignalR fundamental classes. This also enables v2 users to work with any species, whereas only Mus musculus & Homo sapiens were available before in SingleCellSignalR v1.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("SingleCellSignalR")Details
| Maintainer | Jean-Philippe Villemin <jpvillemin@gmail.com> |
| Author | Jacques Colinge [aut] (ORCID: <https://orcid.org/0000-0003-2466-4824>), Jean-Philippe Villemin [cre] (ORCID: <https://orcid.org/0000-0002-1838-5880>) |
| License | CeCILL | file LICENSE |
| URL | https://github.com/jcolinge/SingleCellSignalR |
| Bug Reports | https://github.com/jcolinge/SingleCellSignalR/issues |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Network, NetworkInference, Proteomics, RNASeq, SingleCell, Software, Transcriptomics |
| Package Short Url | https://bioconductor.org/packages/SingleCellSignalR/ |
Citation
From within R, enter citation("SingleCellSignalR"):
Jacques Colinge. SingleCellSignalR: Cell Signalling Using Single-Cell RNA-seq or Proteomics Data. doi:10.18129/B9.bioc.SingleCellSignalR, R package version 2.3.0, https://bioconductor.org/packages/SingleCellSignalR.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | SingleCellSignalR_2.3.0.tar.gz |
| Windows binary (x86_64) | SingleCellSignalR_2.3.0.zip |
| macOS binary (arm64) | SingleCellSignalR_2.3.0.tgz |
| macOS binary (x86_64) | SingleCellSignalR_2.3.0.tgz |
Dependencies
Depends: R (>= 4.5)
Imports: stats, utils, methods, ggplot2, matrixTests, matrixStats, foreach, BulkSignalR, grid, ComplexHeatmap, circlize
Reverse dependencies
Suggests Me (1): tidySingleCellExperiment