Fig. 1: Outline of the phased assembly algorithm, DipAsm.
From: Chromosome-scale, haplotype-resolved assembly of human genomes
Assemble HiFi reads into unphased contigs using Peregrine (1); group and order contigs into scaffolds with Hi-C data using HiRise/3D-DNA (3D de novo assembly) (2); map HiFi reads to scaffolds and call heterozygous SNPs using DeepVariant (3); phase heterozygous SNP calls with both HiFi and Hi-C data using WhatsHap plus HapCUT2 (4); partition reads based on their phase using WhatsHap (5); assemble partitioned reads into phased contigs using Peregrine (6).
