Fix false positives

False positives are usually related to artifacts that create unexpected amplification, such as a primer-dimer or contamination problems. Some false positives are reported because of the difficulties inherent with the handling of homopolymer regions.

Use one of the following methods to resolve these issues:

• Adjust parameters that control the homopolymer calls. This can increase the report of false negatives.

• If you are repeatedly running a panel, manually curate specific sites (positions), since the false positive tends to occur in the same positions.

The variantCaller plugin does not support manual curation. Manual curation is available in the command-line version.