We supply here an example dataset, a downsampled dataset of immune cells from patients with mild COVID-19, severe COVID-19, or healthy controls. To run the example, download and unzip the "TestCovidDataset.tar.gz" file, then configure the file scripts/pipeline_runner.R
based on your preferences and system folder paths.
This dataset is from COvid-19 Multi-omics Blood ATlas (COMBAT) Consortium, Cell 2022. Data was downloaded from the cellxgene portal and downsampled to 2 patients per condition with ~800 cells each. (Note that the scDAPP paper uses the same samples but with all cells.)