cell_ranger_multi

• count

  Aligns and quantifies FastQ files from a multiomic 10x experiment against a reference genome and include VDJ-B/T and cell surface markers. Output matrices for gene expression and features are provided in triplet and h5 formats. VDJ data are provided separately.
• make_input_csv

  Creates a configuration file for a library, listing the sample names, assay types and paths to FastQ files (etc).