scData

This package provides example data for use with the MultiK package. Data will be lazily created as a Seurat object in the global R environment.

License

The included data is licensed for use with attribution CC BY 4.0. Please cite:

Dong M, Thennavan A, Urrutia E, Li Y et al. SCDC: bulk gene expression deconvolution by multiple single-cell RNA sequencing references. Brief Bioinform 2021 Jan 18;22(1):416-427. DOI: 10.1093/bib/bbz166; PMID: 31925417

Installation

This package is currently available only on GitHub as siyao-liu/scData. You can install the current version using the remotes package (which you must already have installed):

# install.packages("remotes")
remotes::install_github("siyao-liu/scData")

Usage

Once installed, just attach the package; this makes the global variable scData available (lazily). The data won’t actually be loaded until it is first used.

library(scData)
scData

#> Loading required package: Seurat
#> Attaching SeuratObject
#> Attaching sp

#> An object of class Seurat 
#> 21247 features across 2609 samples within 1 assay 
#> Active assay: RNA (21247 features, 0 variable features)

# For a description of the data object:
?scData

Data source

The data is extracted from a single cell data set published in the Gene Expression Omnibus database GEO as accession GSM4041646.