Analysis FAQ for Illumina DNA PCR Free libraries

What is the recommended analysis workflow?

• Illumina DNA PCR-Free data generated from the NovaSeq 6000 can be analyzed, visualized, and interpreted with the TruSight Software Suite.

• Illumina DNA PCR-Free data can also be evaluated utilizing the Illumina DRAGEN Germline pipeline v3.4+.

• Alternative pipelines can be used to analyze data; however, different analyses may provide slightly different results.

What are the adapter trimming sequence(s) for this library?

• Trim both Read 1 and Read 2 with: CTGTCTCTTATACACATCT+ATGTGTATAAGAGACA

**Are there Illumina DNA PCR-Free precision and recall statistics for NA12878 using the latest DRAGEN pipeline and how do these numbers change with decreased coverage? How do the results compare to TruSeq DNA PCR-Free?**See BaseSpace Demo Data sets for Illumina DNA PCR-Free. Are example datasets available?

See BaseSpace Demo Data sets for Illumina DNA PCR-Free.

For any feedback or questions regarding this article (Illumina Knowledge Article #3440), contact Illumina Technical Support [e-mail].