Single Cell RNAseq of Mouse Testis

This is the processed data from the publication: "Unified single-cell analysis of testis gene regulation and pathology in 5 mouse strains"

The raw data is avaliable at GEO: GSE113293

Associated software is at https://zenodo.org/badge/latestdoi/140632831

R objects within the file include:

• data: a sparse matrix of normalised read counts (20322 cells by 19262 genes)
• datat: a data.table of metadata of the cells. 77 columns including cell name, SDA component cell scores, Tsne coordinates, pseudotimes etc.
• principal_curves: list of output of princurve() used to generate the pseudotime trajetories
• results: output of SDA
• rna_locations: data.table of gene names and their associated chromosome and position - used for plotting
• chromosome.lengths: data.table of chromosomes with their lengths, center etc. - used for plotting