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Telomere-to-telomere assembly
We currently recommend users with bioinformatic experience to analyse their data using Verkko, a genome assembly pipeline specifically designed for large, eukaryotic genomes and incorporates duplex data (high accuracy reads) and ultra-long reads for assembly of a human chromosome. This workflow starts by building a multiplex de Bruijn graph based on the duplex data and uses the ultra-long reads to simplify the graph for assembly of a chromosome.
To provide functionality for the detection of Pore-C ligation junctions and the genomic assembly of fragments, we recommend using Pore-C-Snakemake and Pore-C tools which will be made available through our EPI2ME products.
We will be releasing an EPI2ME workflow combining the three datasets for more accessibilty for users of all experience. Further information will be released on the Community.