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@ARTICLE{Schrinner:890802,
      author       = {Schrinner, Sven D. and Mari, Rebecca Serra and Ebler, Jana
                      and Rautiainen, Mikko and Seillier, Lancelot and Reimer,
                      Julia J. and Usadel, Björn and Marschall, Tobias and Klau,
                      Gunnar W.},
      title        = {{H}aplotype threading: accurate polyploid phasing from long
                      reads},
      journal      = {Genome biology},
      volume       = {21},
      number       = {1},
      issn         = {1474-760X},
      address      = {London},
      publisher    = {BioMed Central},
      reportid     = {FZJ-2021-01210},
      pages        = {252},
      year         = {2020},
      note         = {Grant name:de.NBI - Etablierungsphase: Leistungszentrum
                      GCBN – Deutsches BioGreenformatics-Netzwerk für
                      Kulturpflanzen, BMBF 031A536C},
      abstract     = {Resolving genomes at haplotype level is crucial for
                      understanding the evolutionary history of polyploid species
                      and for designing advanced breeding strategies. Polyploid
                      phasing still presents considerable challenges, especially
                      in regions of collapsing haplotypes.We present WhatsHap
                      polyphase, a novel two-stage approach that addresses these
                      challenges by (i) clustering reads and (ii) threading the
                      haplotypes through the clusters. Our method outperforms the
                      state-of-the-art in terms of phasing quality. Using a real
                      tetraploid potato dataset, we demonstrate how to assemble
                      local genomic regions of interest at the haplotype level.
                      Our algorithm is implemented as part of the widely used open
                      source tool WhatsHap.},
      cin          = {IBG-4},
      ddc          = {570},
      cid          = {I:(DE-Juel1)IBG-4-20200403},
      pnm          = {899 - ohne Topic (POF3-899)},
      pid          = {G:(DE-HGF)POF3-899},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {32951599},
      UT           = {WOS:000574470900001},
      doi          = {10.1186/s13059-020-02158-1},
      url          = {https://juser.fz-juelich.de/record/890802},
}