- Home
- Bioconductor 3.20
- Software Packages
- dominoSignal
dominoSignal
This package is for version 3.20 of Bioconductor; for the stable, up-to-date release version, see dominoSignal.
Cell Communication Analysis for Single Cell RNA Sequencing
Bioconductor version: 3.20
dominoSignal is a package developed to analyze cell signaling through ligand - receptor - transcription factor networks in scRNAseq data. It takes as input information transcriptomic data, requiring counts, z-scored counts, and cluster labels, as well as information on transcription factor activation (such as from SCENIC) and a database of ligand and receptor pairings (such as from CellPhoneDB). This package creates an object storing ligand - receptor - transcription factor linkages by cluster and provides several methods for exploring, summarizing, and visualizing the analysis.
Author: Christopher Cherry [aut] ORCID iD ORCID: 0000-0002-5481-0055 , Jacob T Mitchell [aut, cre] ORCID iD ORCID: 0000-0002-5370-9692 , Sushma Nagaraj [aut] ORCID iD ORCID: 0000-0001-5166-1309 , Kavita Krishnan [aut] ORCID iD ORCID: 0000-0003-1345-0249 , Dmitrijs Lvovs [aut], Elana Fertig [ctb] ORCID iD ORCID: 0000-0003-3204-342X , Jennifer Elisseeff [ctb] ORCID iD ORCID: 0000-0002-5066-1996
Maintainer: Jacob T Mitchell <jmitch81 at jhmi.edu>
citation("dominoSignal")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("dominoSignal")
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("dominoSignal")
Details
See More
Package Archives
Follow Installation instructions to use this package in your R session.