Way more cells available on SRA for FACS sorted Tongue

czbiohub-sf / tabula-muris

Code and annotations for the Tabula Muris single-cell transcriptomic dataset.

https://www.nature.com/articles/s41586-018-0590-4

BSD 3-Clause "New" or "Revised" License

187 stars 91 forks source link

Way more cells available on SRA for FACS sorted Tongue #232

Closed ftucos closed 3 years ago

ftucos commented 3 years ago

In the paper and the robj available on Figshare you have 1,416 cells in the FACS sorted dataset for the Tongue. I downloaded the raw fastq files from SRA to obtain RNA velocity but I have 2520 cells available there. Even after applying your recommended cutoff of >500 nFeatures and >50.000 reads I still have more than 2.000 cells. Am I missing something? Also, do you provide metadata refereeing to the SRA id for the annotated cells?

aopisco commented 3 years ago

please use the Tabula Muris Senis dataset for reference