Hi all, I'm a newbie in genome assembling. I have long reads sequence, and I already finished running assembler, polishing and then scaffolding. Next step I guess is to manually curate the assembly? How do I know where I have gaps in the assembly?
For example, I have a quast figure like this for part of one chromosome aligned against reference genome: Is the blank part around 13Mb a huge gap? I find quite some this kind of blank regions in my scaffolds, and I assume that it's not a gap. If this is true, then how can I see where the gap is and what genes are in the gap region?