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Panmap: Scalable phylogeny-guided alignment, genotyping, and placement on pangenomes.

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Title: Panmap: Scalable phylogeny-guided alignment, genotyping, and placement on pangenomes.
Authors: Kramer AM; Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.; Genomics Institute, University of California Santa Cruz, USA., Zhang A; Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.; Genomics Institute, University of California Santa Cruz, USA., Ayala N; Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.; Genomics Institute, University of California Santa Cruz, USA.; Center for Computational Biology, University of California Berkeley, USA., de Sanctis B; Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.; Genomics Institute, University of California Santa Cruz, USA.; Department of Genetics, University of Cambridge, UK.; Ancient Environmental Genomics Initiative for Sustainability, Globe Institute, University of Copenhagen, Copenhagen, Denmark., Karim L; Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.; Genomics Institute, University of California Santa Cruz, USA., Hinrichs AS; Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.; Genomics Institute, University of California Santa Cruz, USA., Walia S; Department of Electrical and Computer Engineering, University of California San Diego, USA., Turakhia Y; Department of Electrical and Computer Engineering, University of California San Diego, USA., Corbett-Detig R; Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.; Genomics Institute, University of California Santa Cruz, USA.
Source: BioRxiv : the preprint server for biology [bioRxiv] 2026 Mar 30. Date of Electronic Publication: 2026 Mar 30.
Publication Type: Journal Article; Preprint
Journal Info: Country of Publication: United States NLM ID: 101680187 Publication Model: Electronic Cited Medium: Internet ISSN: 2692-8205 (Electronic) Linking ISSN: 26928205 NLM ISO Abbreviation: bioRxiv Subsets: PubMed not MEDLINE
Database: MEDLINE Ultimate
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PubType: Academic Journal
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  Data: <searchLink fieldCode="AU" term="%22Kramer+AM%22">Kramer AM</searchLink>; Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.; Genomics Institute, University of California Santa Cruz, USA.<br /><searchLink fieldCode="AU" term="%22Zhang+A%22">Zhang A</searchLink>; Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.; Genomics Institute, University of California Santa Cruz, USA.<br /><searchLink fieldCode="AU" term="%22Ayala+N%22">Ayala N</searchLink>; Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.; Genomics Institute, University of California Santa Cruz, USA.; Center for Computational Biology, University of California Berkeley, USA.<br /><searchLink fieldCode="AU" term="%22de+Sanctis+B%22">de Sanctis B</searchLink>; Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.; Genomics Institute, University of California Santa Cruz, USA.; Department of Genetics, University of Cambridge, UK.; Ancient Environmental Genomics Initiative for Sustainability, Globe Institute, University of Copenhagen, Copenhagen, Denmark.<br /><searchLink fieldCode="AU" term="%22Karim+L%22">Karim L</searchLink>; Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.; Genomics Institute, University of California Santa Cruz, USA.<br /><searchLink fieldCode="AU" term="%22Hinrichs+AS%22">Hinrichs AS</searchLink>; Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.; Genomics Institute, University of California Santa Cruz, USA.<br /><searchLink fieldCode="AU" term="%22Walia+S%22">Walia S</searchLink>; Department of Electrical and Computer Engineering, University of California San Diego, USA.<br /><searchLink fieldCode="AU" term="%22Turakhia+Y%22">Turakhia Y</searchLink>; Department of Electrical and Computer Engineering, University of California San Diego, USA.<br /><searchLink fieldCode="AU" term="%22Corbett-Detig+R%22">Corbett-Detig R</searchLink>; Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA, USA.; Genomics Institute, University of California Santa Cruz, USA.
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  Data: <i>Country of Publication: </i>United States <i>NLM ID: </i>101680187 <i>Publication Model: </i>Electronic <i>Cited Medium: </i>Internet <i>ISSN: </i>2692-8205 (Electronic) <i>Linking ISSN: </i><searchLink fieldCode="IS" term="%2226928205%22">26928205 </searchLink><i>NLM ISO Abbreviation: </i>bioRxiv <i>Subsets: </i>PubMed not MEDLINE
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        Value: 10.64898/2026.03.29.711974
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