NGS Summary Statistics

The NGS Summary Statistics pipeline provides a comprehensive quality assessment of sequencing data from either raw or aligned input. It reports pass/fail rates and total counts for reads and bases, read length distribution, N50, Q-score profiles, genome coverage, and adapter content.

Platform-specific metrics include:

• ONT – Initial and final pore counts, channel activity over time, and signal-derived quality metrics

• Illumina – Per-base N content, overrepresented sequences, tile/lane quality breakdown

• PacBio – Read type classification (HiFi/CCS vs CLR), polymerase and subread lengths, ZMW pass counts, and insert size distribution

This pipeline supports quality verification across all major platforms and is ideal for both pre- and post-alignment QC in research or clinical workflows.