Evaluate structural variants against truth assemblies using TT-Mars (GitHub - ChaissonLab/TT-Mars: Structural Variants Assessment Based on Haplotype-resolved Assemblies). If necessary, lift-over files can be made from the reference genome and the two assembled haplotypes.
This is a companion discussion topic for the original entry at github.com/jmonlong/card_workflows/evaluateSVsWithTTMars