https://github.com/helenalc/muscdata
Multi-sample multi-group scRNA-seq datasets
https://github.com/helenalc/muscdata
Last synced: about 1 year ago
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Multi-sample multi-group scRNA-seq datasets
- Host: GitHub
- URL: https://github.com/helenalc/muscdata
- Owner: HelenaLC
- License: mit
- Created: 2019-04-11T13:56:57.000Z (about 7 years ago)
- Default Branch: master
- Last Pushed: 2020-03-12T14:13:37.000Z (over 6 years ago)
- Last Synced: 2025-02-17T01:29:44.737Z (over 1 year ago)
- Language: R
- Size: 38.1 KB
- Stars: 0
- Watchers: 1
- Forks: 1
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
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README
# muscData
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](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE96583), [reference](https://doi.org/10.1038/nbt.4042)]
- `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](https://content.cruk.cam.ac.uk/jmlab/chimera_tal1_data), [reference](https://www.ncbi.nlm.nih.gov/pubmed/30787436)]