hvulgaris scRNA data set objects
Description
Converted scRNA data from (Cazet et al. 2022), see a detailed description of the study here: https://doi.org/10.1101/2022.06.21.496857
Data were downloaded from https://research.nhgri.nih.gov/HydraAEP/download/scriptsdata/aepAtlasNonDub.rds and converted into AnnData (h5ad) files only keeping the RNA assay (removed integrated and SCT assay) to be able to analyse with e.g. python scanpy package.
Note: In the original rds file, the rownames(aepAtlasNonDub@meta.data) are sorted alpha-numerical, whereas the cell order in colnames(aepAtlasNonDub) are not. I have re-sorted the rownames(aepAtlasNonDub@meta.data) according to cell order prior AnnData conversion, so that h5ad data have correct observations.
If you use this data, please cite Cazet et al. 2022.
Files
Files
(2.8 GB)
| Name | Size | Download all |
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md5:dac43b45a23d655d6b8c6c2662c071e5
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857.4 MB | Download |
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md5:7d19cc1707565d56307b11d7ac218905
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1.9 GB | Download |
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md5:79b652500ecf8c9adff25088623c8429
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264.5 kB | Download |
Additional details
References
- Cazet, Jack, Stefan Siebert, Hannah Morris Little, Philip Bertemes, Abby S. Primack, Peter Ladurner, Matthias Achrainer et al. (2022) New Hydra genomes reveal conserved principles of hydrozoan transcriptional regulation., bioRxiv, 2022.06.21.496857.
- Satija, R., Farrell, J.A., Gennert, D., Schier, A.F. and Regev, A., 2015. Spatial reconstruction of single-cell gene expression data. Nature biotechnology, 33(5), pp.495-502.
- Wolf, F.A., Angerer, P. and Theis, F.J., 2018. SCANPY: large-scale single-cell gene expression data analysis. Genome biology, 19(1), pp.1-5.