I have more of a conceptual question. I have two genome assemblies from the same plant, one from Dovetail technology (~998 Gb) and another is PacBio HiFi assembly (~1.1 Gb). The Dovetail assembly is more contiguous but has lower base quality whereas the PacBio has higher base quality but more fragmented. It is a diploid organism with relatively high heterozygosity.
I tried to use RagTag
patch to improve the assembly. But no improvement was obtained.
Is there a way to use both assemblies and produce a hybrid assembly with high contiguity and base quality?
Please share your thoughts.