SingleCellSignalR
This is the development version of SingleCellSignalR; for the stable release version, see SingleCellSignalR.
Cell Signalling Using Single-Cell RNA-seq or Proteomics Data
Bioconductor version: Development (3.22)
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.
Author: Jacques Colinge [aut]
, Jean-Philippe Villemin [cre]
Maintainer: Jean-Philippe Villemin <jpvillemin at gmail.com>
citation("SingleCellSignalR")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("SingleCellSignalR")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("SingleCellSignalR")| SingleCellSignalR-Main | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Network, NetworkInference, Proteomics, RNASeq, SingleCell, Software, Transcriptomics |
| Version | 1.99.1 |
| In Bioconductor since | BioC 3.11 (R-4.0) (5.5 years) |
| License | CeCILL | file LICENSE |
| Depends | R (>= 4.5) |
| Imports | stats, utils, methods, ggplot2, matrixTests, matrixStats, foreach, BulkSignalR |
| System Requirements | |
| URL | https://github.com/jcolinge/SingleCellSignalR |
| Bug Reports | https://github.com/jcolinge/SingleCellSignalR/issues |
See More
| Suggests | knitr, markdown, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | scFeatures |
| Suggests Me | tidySingleCellExperiment, scDiffCom |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | SingleCellSignalR_1.99.1.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | SingleCellSignalR_1.99.1.tgz |
| macOS Binary (arm64) | SingleCellSignalR_1.99.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/SingleCellSignalR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/SingleCellSignalR |
| Bioc Package Browser | https://code.bioconductor.org/browse/SingleCellSignalR/ |
| Package Short Url | https://bioconductor.org/packages/SingleCellSignalR/ |
| Package Downloads Report | Download Stats |