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StrainSeeker: fast identification of bacterial strains from unassembled sequencing reads using user-provided guide trees

Märt Roosaare, Mihkel Vaher, Lauris Kaplinski, Märt Möls, Reidar Andreson, Maarja Lepamets, Triinu Kõressaar, Paul Naaber, Siiri Kõljalg, Maido Remm
doi: https://doi.org/10.1101/040261
Märt Roosaare
1Department of Bioinformatics, IMCB, University of Tartu, Riia 23, EE-51010 Tartu, Estonia
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  • For correspondence: mart.roosaare@ut.ee mihkel.vaher@ut.ee reidar.andreson@ut.ee lauris.kaplinski@ut.ee triinu.koressaar@ut.ee maarja.lepamets@ut.ee martm@ut.ee Paul.Naaber@synlab.ee siiri.koljalg@ut.ee maido.remm@ut.ee
Mihkel Vaher
1Department of Bioinformatics, IMCB, University of Tartu, Riia 23, EE-51010 Tartu, Estonia
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Lauris Kaplinski
1Department of Bioinformatics, IMCB, University of Tartu, Riia 23, EE-51010 Tartu, Estonia
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Märt Möls
2Estonian Biocentre, Riia 23, EE-51010 Tartu, Estonia
3Institute of Mathematical Statistics, University of Tartu, Liivi 2, EE-50409 Tartu, Estonia
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Reidar Andreson
1Department of Bioinformatics, IMCB, University of Tartu, Riia 23, EE-51010 Tartu, Estonia
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Maarja Lepamets
1Department of Bioinformatics, IMCB, University of Tartu, Riia 23, EE-51010 Tartu, Estonia
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Triinu Kõressaar
1Department of Bioinformatics, IMCB, University of Tartu, Riia 23, EE-51010 Tartu, Estonia
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Paul Naaber
4Department of Microbiology, University of Tartu, Ravila 19, EE-50411 Tartu, Estonia
5synlab Eesti, Väike-Paala 1, EE-11415 Tallinn, Estonia
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Siiri Kõljalg
4Department of Microbiology, University of Tartu, Ravila 19, EE-50411 Tartu, Estonia
6United Laboratories, Tartu University Clinics, L. Puusepa 1 a, EE-50406 Tartu, Estonia
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Maido Remm
1Department of Bioinformatics, IMCB, University of Tartu, Riia 23, EE-51010 Tartu, Estonia
2Estonian Biocentre, Riia 23, EE-51010 Tartu, Estonia
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Posted February 19, 2016.
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StrainSeeker: fast identification of bacterial strains from unassembled sequencing reads using user-provided guide trees
Märt Roosaare, Mihkel Vaher, Lauris Kaplinski, Märt Möls, Reidar Andreson, Maarja Lepamets, Triinu Kõressaar, Paul Naaber, Siiri Kõljalg, Maido Remm
bioRxiv 040261; doi: https://doi.org/10.1101/040261
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StrainSeeker: fast identification of bacterial strains from unassembled sequencing reads using user-provided guide trees
Märt Roosaare, Mihkel Vaher, Lauris Kaplinski, Märt Möls, Reidar Andreson, Maarja Lepamets, Triinu Kõressaar, Paul Naaber, Siiri Kõljalg, Maido Remm
bioRxiv 040261; doi: https://doi.org/10.1101/040261

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