- Added the RepeatAfterMe auto-extension step to Refiner. This is applied to both
RepeatScout and RECON generated family models. - RepeatClassifier now checks for a complete Dfam FamDB database.
- A new redundancy filter is applied to RepeatScout families.
- Lowered masking score threshold to reduce rediscovery.
- Fixed a bug with the recoverDir round detection logic.