The full dataset including the count matrix, cell meta data and gene meta data can be found on GEO: GSE199308.
The analysis code and small example datasets can be found on GitHub.
| Filename | Size | Content | Date Modified |
|---|---|---|---|
| gene_count.mtx.gz | 5.3 Gb | Count matrix (.mtx.gz) hosted on GEO, can be read using Matrix::readMM( ) in R or scanpy.read_mtx( ) in Python | 2023-11-26 |
| cell_annotate.csv.gz | 26.4 Mb | Cell meta data (.csv.gz) hosted on GEO, with sample information | 2023-11-26 |
| pd.csv.gz | 129 Mb | Cell meta data (.csv.gz) with cell type labels and other per cell QC metrics | 2023-11-27 |
| embryoID_subTraj_count_matrix.csv | 22.7 Kb | Embryo by sub trajectory (101 x 64) cell counts matrix (.csv) | 2023-11-27 |
| gene_meta.csv | 3.1 Mb | Gene IDs, type, and names (.csv) | 2024-01-08 |
| G4WT_G4Sox9RegulatoryKO.mtx | 826 Mb | Count matrix of subset of data containing cells from G4 WT and Sox9 Regulatory KO (.mtx) | 2024-01-08 |
| G4WT_G4Sox9RegulatoryKO_cell_meta.csv | 3.1 Mb | Cell meta data for subset of data containing cells from G4 WT and Sox9 Regulatory KO (.csv) | 2024-01-08 |