HiFi presets
With v2.5.0 we introduced the concept of recommended parameter presets called --hifi-preset
. All preset use
--ccs --min-score 80 --min-end-score 50 --min-ref-span 0.75
in addition they differ as following
Preset | Definition |
SYMMMETRIC | --same |
SYMMETRIC-ADAPTERS | --same --ignore-missing-adapters |
ASYMMETRIC | --different --min-scoring-regions 2 |
For barcoded adapter libraries, SYMMETRIC-ADAPTERS
will increase demultiplexed yield. More info under barcoded adapter FAQ