This section contains two workflows: geomxngs_fastq_to_dcc and geomxngs_dcc_to_count_matrix.
geomxngs_fastq_to_dcc workflow wraps Nanostring GeoMx Digital Spatial NGS Pipeline and can convert FASTQ files into DCC files.
geomxngs_dcc_to_count_matrix workflow takes the DCC zip file from geomxngs_fastq_to_dcc and other files produced by the GeoMx DSP machine as inputs, and outputs an area of illumination (AOI) by probe count matrix with pathologists' annotation.