Module: Umi count - ComputationalSystemsBiology/Single-cell-RNA-seq GitHub Wiki

Count UMIs per gene per cell.

• Internal name : umicount

• Avalaible : local mode

• Input Ports :

  • input: binary alignment files (format=mapper_results_bam).

• Output Ports :

  • output: matrix of the number of UMI counts per cell and per gene (format=expression_matrix_tsv).

• Optional parameters : none (to be updated)

More info: https://github.com/CGATOxford/UMI-tools/blob/master/doc/Single_cell_tutorial.md - look for "umi count"