Multi-sample multi-group scRNA-seq data
The muscData package is aimed at providing a set of publicly available single-cell RNA sequencing (scRNA-seq) datasets with complex experimental designs, i.e., datasets that contain multiple samples (e.g., individuals) measured across multiple experimental conditions (e.g., treatments), formatted into SingleCellExperiment (SCE) Bioconductor objects. All provided SCEs contain unfiltered raw counts, and any gene and cell metadata available from the original data source.
Currently available datasets:
-
Kang18_8vs8:
10x droplet-based scRNA-seq PBMC data from 8 Lupus patients before and after 6h-treatment with INF-beta [source, reference] -
Sala19_2vs2:
10x scRNA-seq data from chimeric mice embryos in which Tal1-knockout (KO) embryonic stem cells were injected into a wild-type (WT) blastocyst (2 samples per group) [source, reference]