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IDs: 7920791 [UID] 21711168 [GenBank]
The assembly fDreTuH1.2 is based on 67x PacBio Sequel II data generated by Gene Myers at the MPI of Molecular Cell Biology and Genetics, Dresden, 96x 10X Genomics Chromium data, BioNano data, and 83x Dovetail Hi-C data (from an ... different individual, SAMEA104026397) generated at the Wellcome Sanger Institute. The assembly process included the following sequence of steps: segregation of PacBio reads representing the two haplotypes using trioCanu and k-mers from the Illumina-sequenced parents (maternal: SAMEA3891248 at 143x coverage, and paternal: SAMEA3891249 at 136x coverage), separate assembly of each haplotype using Canu, polishing with Arrow from the binned reads, retained duplication removal with purge_dups, 10X based scaffolding with scaff10x, BioNano hybrid-scaffolding, Hi-C based scaffolding with SALSA2, further Arrow polishing, and two rounds of FreeBayes Illumina polishing. The mitochondrial assembly was produced at The Rockefeller University using mitoVGP. Finally, the assembly was analysed and manually improved using gEVAL and marker placement from the high density genetic map SATMAP (PUBMED: 23594743). more
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