This is a repository of scripts used to analyse single-cell transcriptomic data in Rito et al. (2023).
The raw sequencing data is publicly available to download at the GEO genomics data repository.
-
chicken trunk embryo data (4, 7, 10, 13 somites). Dissociated tissue caudal from 3rd somite.
-
human posterior neuruloid data. Day3 micropatterned colonies with several timing delays in BMP&NODAL inhibition.
-
human notoroid data. Days 3, 5 and 7 trunk organoids featuring neural, paraxial and axial mesoderm.
-
Example of read mapping and counting script
-
Example QC of a data set
-
Analyses
-
Example of read mapping and counting script
-
QC of individual datasets
-
Merge and plot
- RF classifier
Contact regarding analysis/code: Tiago Rito.