read multiple 10x umi matrices and merge them, based on a table defining the datasets. Field amp_batch_id from the table is added to the cell name to prevent cell names clashes.

read multiple 10x umi matrices and merge them, based on a table defining the datasets. Field amp_batch_id from the table is added to the cell name to prevent cell names clashes.

mcell_read_multi_scmat_10x(datasets_table_fn, base_dir)

Arguments

datasets_table_fn

the index file of the 10x multi batch dataset. Fileds include: Batch.Set.ID, mat_fn, genes_fn, cells_fn. The first field must be specifieid for each row. The others may be NA, in which case the import process will search for base_dir/Batch.Set.ID/matrix.mtx, genes.tsv, barcodes.tsv.

base_dir

where the input matrices reside.