{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,18]],"date-time":"2026-04-18T09:10:42Z","timestamp":1776503442798,"version":"3.51.2"},"reference-count":10,"publisher":"Oxford University Press (OUP)","issue":"15","license":[{"start":{"date-parts":[[2016,11,7]],"date-time":"2016-11-07T00:00:00Z","timestamp":1478476800000},"content-version":"vor","delay-in-days":951,"URL":"http:\/\/creativecommons.org\/licenses\/by\/3.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2014,8,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: Although many next-generation sequencing (NGS) read preprocessing tools already existed, we could not find any tool or combination of tools that met our requirements in terms of flexibility, correct handling of paired-end data and high performance. We have developed Trimmomatic as a more flexible and efficient preprocessing tool, which could correctly handle paired-end data.<\/jats:p>\n               <jats:p>Results: The value of NGS read preprocessing is demonstrated for both reference-based and reference-free tasks. Trimmomatic is shown to produce output that is at least competitive with, and in many cases superior to, that produced by other tools, in all scenarios tested.<\/jats:p>\n               <jats:p>Availability and implementation: Trimmomatic is licensed under GPL V3. It is cross-platform (Java 1.5+ required) and available at http:\/\/www.usadellab.org\/cms\/index.php?page=trimmomatic<\/jats:p>\n               <jats:p>Contact: \u00a0usadel@bio1.rwth-aachen.de<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btu170","type":"journal-article","created":{"date-parts":[[2014,4,3]],"date-time":"2014-04-03T01:29:50Z","timestamp":1396488590000},"page":"2114-2120","source":"Crossref","is-referenced-by-count":59404,"title":["Trimmomatic: a flexible trimmer for Illumina sequence data"],"prefix":"10.1093","volume":"30","author":[{"given":"Anthony M.","family":"Bolger","sequence":"first","affiliation":[{"name":"1 Department Metabolic Networks, Max Planck Institute of Molecular Plant Physiology, Am M\u00fchlenberg 1, 14476 Golm, 2 Institut f\u00fcr Biologie I, RWTH Aachen, Worringer Weg 3, 52074 Aachen and 3 Institute of Bio- and Geosciences: Plant Sciences, Forschungszentrum J\u00fclich, Leo-Brandt-Stra\u00dfe, 52425 J\u00fclich, Germany"},{"name":"1 Department Metabolic Networks, Max Planck Institute of Molecular Plant Physiology, Am M\u00fchlenberg 1, 14476 Golm, 2 Institut f\u00fcr Biologie I, RWTH Aachen, Worringer Weg 3, 52074 Aachen and 3 Institute of Bio- and Geosciences: Plant Sciences, Forschungszentrum J\u00fclich, Leo-Brandt-Stra\u00dfe, 52425 J\u00fclich, Germany"}]},{"given":"Marc","family":"Lohse","sequence":"additional","affiliation":[{"name":"1 Department Metabolic Networks, Max Planck Institute of Molecular Plant Physiology, Am M\u00fchlenberg 1, 14476 Golm, 2 Institut f\u00fcr Biologie I, RWTH Aachen, Worringer Weg 3, 52074 Aachen and 3 Institute of Bio- and Geosciences: Plant Sciences, Forschungszentrum J\u00fclich, Leo-Brandt-Stra\u00dfe, 52425 J\u00fclich, Germany"}]},{"given":"Bjoern","family":"Usadel","sequence":"additional","affiliation":[{"name":"1 Department Metabolic Networks, Max Planck Institute of Molecular Plant Physiology, Am M\u00fchlenberg 1, 14476 Golm, 2 Institut f\u00fcr Biologie I, RWTH Aachen, Worringer Weg 3, 52074 Aachen and 3 Institute of Bio- and Geosciences: Plant Sciences, Forschungszentrum J\u00fclich, Leo-Brandt-Stra\u00dfe, 52425 J\u00fclich, Germany"},{"name":"1 Department Metabolic Networks, Max Planck Institute of Molecular Plant Physiology, Am M\u00fchlenberg 1, 14476 Golm, 2 Institut f\u00fcr Biologie I, RWTH Aachen, Worringer Weg 3, 52074 Aachen and 3 Institute of Bio- and Geosciences: Plant Sciences, Forschungszentrum J\u00fclich, Leo-Brandt-Stra\u00dfe, 52425 J\u00fclich, Germany"}]}],"member":"286","published-online":{"date-parts":[[2014,4,1]]},"reference":[{"key":"2023012711322804500_btu170-B1","doi-asserted-by":"crossref","first-page":"1","DOI":"10.2174\/1875036201307010001","article-title":"Comparison of sequencing utility programs","volume":"7","author":"Aronesty","year":"2013","journal-title":"Open Bioinform. 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