HiFi data combine long read lengths (typically 15–25 kb) with Q30+ accuracy, they can be used directly in many standard bioinformatics workflows:
- De novo genome assembly – Produces highly contiguous assemblies with fewer gaps and more complete resolution of repetitive regions.
- Structural variant (SV) detection – Accurately identifies large insertions, deletions, inversions, and complex rearrangements.
- Small variant calling (SNVs and indels) – High accuracy supports confident detection of single-nucleotide and small insertion/deletion variants.
- Haplotype phasing – Long reads span multiple variants, enabling accurate phasing across extended genomic regions.
- Full-length transcript sequencing (Iso-Seq analysis) – Captures complete transcript isoforms without assembly.
- Epigenetic modification detection – Native DNA sequencing enables direct detection of base modifications.
Because HiFi reads reduce ambiguity in complex genomic regions, they simplify pipelines that traditionally required hybrid sequencing approaches or extensive validation—accelerating time from data generation to biological insight.
Explore popular tools and workflows for HiFi applications
Explore example datasets with the applications and tools