v1.3
- Uses the complete rewrite of TranscriptClean version 2.0.2 enhancing the speed, and especially memory performance.
- canonical_only option added to TranscriptClean step.
- New TranscriptClean requires matching chromosome names in the reference, and in the variants file (if using one). dbSNP derived compatible variants file available at https://www.encodeproject.org/files/ENCFF911UGW/