Fig. 8

Redundancy/Fragmentation removal challenges. Both inter- and intra-library redundancy is present in de novo datasets and are currently resolved through manual curation. Interlibrary redundancy is often the result of unresolved subfamily structure (e.g. internal deletion products of DNA transposons) that confounds discovery and produces both redundant and fragmented families. Intra library redundancy is an inherent aspect analyzing a single species in isolation. For each new species these ancestral families need to be resolved by comparison to existing families, and by considering presence at orthologous sites