I am currently trying to split the raw reads by chromosome, and I have a few draft assemblies based on Canu, Nextdenovo, Flye, and Necat. However, the scaffold numbers ended up differently based on draft assemblies after the ccm module, and I also didn't know the real chromosome number of this species (no reference). It would be helpful if you could tell me which scaffolding results (or how to choose) should I use, since they will be of great importance to the assembly step after the raw reads have been split based on scaffolding.
I am currently trying to split the raw reads by chromosome, and I have a few draft assemblies based on Canu, Nextdenovo, Flye, and Necat. However, the scaffold numbers ended up differently based on draft assemblies after the
ccmmodule, and I also didn't know the real chromosome number of this species (no reference). It would be helpful if you could tell me which scaffolding results (or how to choose) should I use, since they will be of great importance to the assembly step after the raw reads have been split based on scaffolding.