{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,9,9]],"date-time":"2024-09-09T19:37:55Z","timestamp":1725910675391},"publisher-location":"Cham","reference-count":20,"publisher":"Springer International Publishing","isbn-type":[{"type":"print","value":"9783319598246"},{"type":"electronic","value":"9783319598260"}],"license":[{"start":{"date-parts":[[2017,1,1]],"date-time":"2017-01-01T00:00:00Z","timestamp":1483228800000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/www.springer.com\/tdm"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2017]]},"DOI":"10.1007\/978-3-319-59826-0_13","type":"book-chapter","created":{"date-parts":[[2017,9,18]],"date-time":"2017-09-18T07:16:01Z","timestamp":1505718961000},"page":"299-325","source":"Crossref","is-referenced-by-count":0,"title":["An Efficient Approach to Merging Paired-End Reads and Incorporation of Uncertainties"],"prefix":"10.1007","author":[{"given":"Tom\u00e1\u0161","family":"Flouri","sequence":"first","affiliation":[]},{"given":"Jiajie","family":"Zhang","sequence":"additional","affiliation":[]},{"given":"Lucas","family":"Czech","sequence":"additional","affiliation":[]},{"given":"Kassian","family":"Kobert","sequence":"additional","affiliation":[]},{"given":"Alexandros","family":"Stamatakis","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2017,9,19]]},"reference":[{"issue":"1","key":"13_CR1","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1016\/j.cell.2013.09.006","volume":"155","author":"D.C. Koboldt","year":"2013","unstructured":"Koboldt, D.C., Steinberg, K.M., Larson, D.E., Wilson, R.K., Mardis, E.R.: The next-generation sequencing revolution and its impact on genomics. Cell 155(1), 27\u201338 (2013)","journal-title":"Cell"},{"key":"13_CR2","doi-asserted-by":"crossref","first-page":"387","DOI":"10.1146\/annurev.genom.9.081307.164359","volume":"9","author":"E.R. Mardis","year":"2008","unstructured":"Mardis, E.R.: Next-generation DNA sequencing methods. Annu. Rev. Genomics Hum. Genet. 9, 387\u2013402 (2008)","journal-title":"Annu. Rev. Genomics Hum. Genet."},{"key":"13_CR3","doi-asserted-by":"crossref","unstructured":"Zhang, J., Kobert, K., Flouri, T., Stamatakis, A.: PEAR: a fast and accurate Illumina Paired-End reAd mergeR. Bioinformatics (Oxford, England) 30(5), 614\u2013620 (2014)","DOI":"10.1093\/bioinformatics\/btt593"},{"issue":"1","key":"13_CR4","doi-asserted-by":"crossref","first-page":"31","DOI":"10.1186\/1471-2105-13-31","volume":"13","author":"A.P. Masella","year":"2012","unstructured":"Masella, A.P., Bartram, A.K., Truszkowski, J.M., Brown, D.G., Neufeld, J.D.: PANDAseq: paired-end assembler for illumina sequences. BMC Bioinf. 13(1), 31 (2012)","journal-title":"BMC Bioinf."},{"key":"13_CR5","doi-asserted-by":"crossref","unstructured":"Mago\u010d, T., Salzberg, S.L.: FLASH: fast length adjustment of short reads to improve genome assemblies. Bioinformatics (Oxford, England) 27(21), 2957\u20132963 (2011)","DOI":"10.1093\/bioinformatics\/btr507"},{"key":"13_CR6","doi-asserted-by":"crossref","DOI":"10.7717\/peerj.2584","volume":"4","author":"T. Rognes","year":"2016","unstructured":"Rognes, T., Flouri, T., Nichols, B., Quince, C., Mah\u00e9, F.: VSEARCH: a versatile open source tool for metagenomics. PeerJ 4, e2584 (2016)","journal-title":"PeerJ"},{"key":"13_CR7","unstructured":"Paszkiewicz, K., Studholme, D.J.: De novo assembly of short sequence reads. Brief. Bioinform. 11(5), 457\u2013472 (2010). [Online] Available: \nhttp:\/\/bib.oxfordjournals.org\/content\/11\/5\/457.abstract"},{"issue":"13","key":"13_CR8","doi-asserted-by":"crossref","DOI":"10.1093\/nar\/gkr344","volume":"39","author":"K. Nakamura","year":"2011","unstructured":"Nakamura, K., Oshima, T., Morimoto, T., Ikeda, S., Yoshikawa, H., Shiwa, Y., Ishikawa, S., Linak, M.C., Hirai, A., Takahashi, H., Altaf-Ul-Amin, M., Ogasawara, N., Kanaya, S.: Sequence-specific error profile of Illumina sequencers. Nucleic Acids Res. 39(13), e90 (2011)","journal-title":"Nucleic Acids Res."},{"issue":"3","key":"13_CR9","doi-asserted-by":"crossref","first-page":"443","DOI":"10.1016\/0022-2836(70)90057-4","volume":"48","author":"S.B. Needleman","year":"1970","unstructured":"Needleman, S.B., Wunsch, C.D.: A general method applicable to the search for similarities in the amino acid sequence of two proteins. J. Mol. Biol. 48(3), 443\u2013453 (1970)","journal-title":"J. Mol. Biol."},{"issue":"3","key":"13_CR10","doi-asserted-by":"crossref","first-page":"705","DOI":"10.1016\/0022-2836(82)90398-9","volume":"162","author":"O. Gotoh","year":"1982","unstructured":"Gotoh, O.: An improved algorithm for matching biological sequences. J. Mol. Biol. 162(3), 705\u2013708 (1982)","journal-title":"J. Mol. Biol."},{"issue":"1","key":"13_CR11","doi-asserted-by":"crossref","first-page":"195","DOI":"10.1016\/0022-2836(81)90087-5","volume":"147","author":"T. Smith","year":"1981","unstructured":"Smith, T., Waterman, M.: Identification of common molecular subsequences. J. Mol. Biol. 147(1), 195\u2013197 (1981)","journal-title":"J. Mol. Biol."},{"issue":"4","key":"13_CR12","first-page":"845","volume":"163","author":"V.I. Levenshtein","year":"1965","unstructured":"Levenshtein, V.I.: Binary codes capable of correcting deletions, insertions and reversals. Dokl. Akad. Nauk SSSR 163(4), 845\u2013848 (1965)","journal-title":"Dokl. Akad. Nauk SSSR"},{"issue":"2","key":"13_CR13","doi-asserted-by":"crossref","first-page":"147","DOI":"10.1002\/j.1538-7305.1950.tb00463.x","volume":"29","author":"R. Hamming","year":"1950","unstructured":"Hamming, R.: Error detecting and error correcting codes. Bell Syst. Tech. J. 29(2), 147\u2013160 (1950)","journal-title":"Bell Syst. Tech. J."},{"issue":"8","key":"13_CR14","doi-asserted-by":"crossref","first-page":"699","DOI":"10.1093\/bioinformatics\/16.8.699","volume":"16","author":"T. Rognes","year":"2000","unstructured":"Rognes, T., Seeberg, E.: Six-fold speed-up of smith-waterman sequence database searches using parallel processing on common microprocessors. Bioinformatics 16(8), 699\u2013706 (2000)","journal-title":"Bioinformatics"},{"key":"13_CR15","doi-asserted-by":"crossref","first-page":"460","DOI":"10.1016\/S0076-6879(96)66029-7","volume":"266","author":"S. Altschul","year":"1996","unstructured":"Altschul, S., Gish, W.: Local alignment statistics. Methods Enzymol. 266, 460\u2013480 (1996)","journal-title":"Methods Enzymol."},{"issue":"4","key":"13_CR16","doi-asserted-by":"crossref","first-page":"357","DOI":"10.1038\/nmeth.1923","volume":"9","author":"B. Langmead","year":"2012","unstructured":"Langmead, B., Salzberg, S.L.: Fast gapped-read alignment with Bowtie 2. Nat. Methods 9(4), 357\u2013359 (2012)","journal-title":"Nat. Methods"},{"key":"13_CR17","doi-asserted-by":"crossref","DOI":"10.1017\/CBO9780511574931","volume-title":"Algorithms on Strings, Trees, and Sequences \u2013 Computer Science and Computational Biology","author":"D. Gusfield","year":"1997","unstructured":"Gusfield, D.: Algorithms on Strings, Trees, and Sequences \u2013 Computer Science and Computational Biology. Cambridge University Press, Cambridge (1997)"},{"issue":"1","key":"13_CR18","first-page":"341","volume":"13","author":"M.A. Quail","year":"2012","unstructured":"Quail, M.A., Smith, M., Coupland, P., Otto, T.D., Harris, S.R., Connor, T.R., Bertoni, A., Swerdlow, H.P., Gu, Y.: A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers. BMC Genomics 13(1), 341 (2012)","journal-title":"Pacific Biosciences and Illumina MiSeq sequencers. BMC Genomics"},{"issue":"3","key":"13_CR19","doi-asserted-by":"crossref","first-page":"186","DOI":"10.1101\/gr.8.3.186","volume":"8","author":"B. Ewing","year":"1998","unstructured":"Ewing, B., Green, P.: Base-calling of automated sequencer traces using Phred. II. Error probabilities. Genome Res. 8(3), 186\u2013194 (1998)","journal-title":"II. Error probabilities. Genome Res."},{"issue":"21","key":"13_CR20","doi-asserted-by":"crossref","first-page":"3476","DOI":"10.1093\/bioinformatics\/btv401","volume":"31","author":"R.C. Edgar","year":"2015","unstructured":"Edgar, R.C., Flyvbjerg, H.: Error filtering, pair assembly and error correction for next-generation sequencing reads. Bioinformatics 31(21), 3476 (2015)","journal-title":"Bioinformatics"}],"container-title":["Algorithms for Next-Generation Sequencing Data"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/978-3-319-59826-0_13","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2017,9,18]],"date-time":"2017-09-18T07:21:47Z","timestamp":1505719307000},"score":1,"resource":{"primary":{"URL":"http:\/\/link.springer.com\/10.1007\/978-3-319-59826-0_13"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017]]},"ISBN":["9783319598246","9783319598260"],"references-count":20,"URL":"https:\/\/doi.org\/10.1007\/978-3-319-59826-0_13","relation":{},"subject":[],"published":{"date-parts":[[2017]]}}}