Is the input genome contig version or scaffold (Hic) version

[YouxinZhao]

I have assembled multiple versions of contig genomes, and I would like to use the gala software. Do these genomes require chromosome scaffolding before I input them into the gala software?

[Isoris]

I would also like to know if we could use HiC scaffolded assemblies lile After polishing or 3D Dna or any more advanced assembly that is not preliminary as input or will it cause a reference bias?