This is the released version of SingleCellAlleleExperiment; for the devel version, see SingleCellAlleleExperiment.
S4 Class for Single Cell Data with Allele and Functional Levels for Immune GenesBioconductor version: Release (3.21)
Defines a S4 class that is based on SingleCellExperiment. In addition to the usual gene layer the object can also store data for immune genes such as HLAs, Igs and KIRs at allele and functional level. The package is part of a workflow named single-cell ImmunoGenomic Diversity (scIGD), that firstly incorporates allele-aware quantification data for immune genes. This new data can then be used with the here implemented data structure and functionalities for further data handling and data analysis.
Author: Jonas Schuck [aut, cre] ORCID: 0009-0003-5705-4579 , Ahmad Al Ajami [aut] ORCID: 0009-0006-5615-7447 , Federico Marini [aut] ORCID: 0000-0003-3252-7758 , Katharina Imkeller [aut] ORCID: 0000-0002-5177-0852
Maintainer: Jonas Schuck <jschuckdev at gmail.com>
Citation (from within R, entercitation("SingleCellAlleleExperiment")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("SingleCellAlleleExperiment")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("SingleCellAlleleExperiment")Follow Installation instructions to use this package in your R session.
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