I think ALLHiC will perform better than 3d-dna. See that paper:
Assembly of allele-aware, chromosomal-scale autopolyploid genomes based on Hi-C data
Xingtan Zhang, Shengcheng Zhang, Qian Zhao, Ray Ming & Haibao Tang
Nature Plants volume 5, pages833–845(2019)
I have used it and it really easy to use and to install.