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IDs: 12163421 [UID] 31872448 [GenBank]
The assembly bAccGen1.1 is based on 34x PacBio data, 10X Genomics Chromium data, and Arima2 Hi-C data generated by the Darwin Tree of Life Project (https://www.darwintreeoflife.org/). The assembly process included the following sequence of steps: initial PacBio assembly generation ... with Hifiasm, retained haplotig separation with purge_dups, short-read polishing using FreeBayes-called variants from 10X Genomics Chromium reads aligned with LongRanger, and Hi-C based scaffolding with YaHS. The mitochondrial genome was assembled using MitoHifi. Finally, the assembly was analysed and manually improved using rapid curation. Chromosome-scale scaffolds confirmed by the Hi-C data have been named in order of size. Microchromosomes SUPER_35, SUPER_36, SUPER_37, and SUPER_38 were curated based on homology to microchromosomes found in Gallus gallus, Taeniopygia guttata, and Cuculus canorus. more
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