GateKeeper-GPU: fast and accurate pre-alignment filtering in short read mapping

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buir.contributor.authorBingöl, Zülal
buir.contributor.authorÖztürk, Özcan
buir.contributor.authorAlkan, Can
buir.contributor.orcidBingöl, Zülal|0000-0002-2828-9665
buir.contributor.orcidAlkan, Can|0000-0002-5443-0706
dc.citation.spage209en_US
dc.contributor.authorBingöl, Zülal
dc.contributor.authorAlser, Mohammed
dc.contributor.authorMutlu, Onur
dc.contributor.authorÖztürk, Özcan
dc.contributor.authorAlkan, Can
dc.date.accessioned2022-02-08T11:28:08Z
dc.date.available2022-02-08T11:28:08Z
dc.date.issued2021-06-24
dc.departmentDepartment of Computer Engineeringen_US
dc.descriptionConference Name: 2021 IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW)en_US
dc.descriptionDate of Conference: 17-21 June 2021en_US
dc.description.abstractWe introduce GateKeeper-GPU, a fast and accurate pre-alignment filter that efficiently reduces the need for expensive sequence alignment. GateKeeper-GPU improves the filtering accuracy of GateKeeper, and by exploiting the massive parallelism provided by GPU threads it concurrently examines numerous sequence pairs rapidly. GateKeeper-GPU is available at https://github.com/BilkentCompGen/GateKeeper-GPU. Please refer to the preprint at arXiv:2103.14978 for more information.en_US
dc.identifier.doi10.1109/IPDPSW52791.2021.00039en_US
dc.identifier.eisbn978-1-6654-3577-2
dc.identifier.isbn978-1-6654-1192-9
dc.identifier.urihttp://hdl.handle.net/11693/77133
dc.language.isoEnglishen_US
dc.publisherIEEEen_US
dc.relation.isversionofhttps://dx.doi.org/10.1109/IPDPSW52791.2021.00039en_US
dc.source.titleIEEE International Symposium on Parallel and Distributed Processing Workshops and Phd Forum (IPDPSW)en_US
dc.subjectRead mappingen_US
dc.subjectPre-alignment filteringen_US
dc.subjectGPGPUen_US
dc.subjectSequence alignment accelerationen_US
dc.titleGateKeeper-GPU: fast and accurate pre-alignment filtering in short read mappingen_US
dc.typeConference Paperen_US
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