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Optical duplicate

Definition
AI-generated

Optical duplicates are duplicate clusters detected on patterned flow cells when the same library fragment is registered in neighboring tiles—distinct from PCR duplicates though both are often marked together.

Topics
Sequencing Data Analysis
Related
Duplicate read PCR duplicate

Why it matters in GWAS

Proper duplicate marking improves depth calibration and reduces false confidence in high-coverage WGS calls.

Example usage

"Optical duplicate marking was enabled for Illumina patterned flow cell data."

Duplicate read PCR duplicate
Related-term network

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References

  • Illumina. Duplicate marking best practices for whole-genome sequencing.
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