This tutorial takes you from the large files containing raw scRNA sequencing reads to a smaller, combined cell matrix.

Time estimation: 3 hours

Learning objectives:

• Generate a cellxgene matrix for droplet-based single cell sequencing data
• Interpret quality control (QC) plots to make informed decisions on cell thresholds
• Find relevant information in GTF files for the particulars of their study, and include this in data matrix metadata
• Combine data matrices from different samples in the same experiment
• Label the metadata for downstream processing