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dc.contributor.authorNaeem, Raeece
dc.contributor.authorRashid, Mamoon
dc.contributor.authorPain, Arnab
dc.date.accessioned2014-08-27T09:51:15Z
dc.date.available2014-08-27T09:51:15Z
dc.date.issued2012-11-28
dc.identifier.citationNaeem R, Rashid M, Pain A (2012) READSCAN: a fast and scalable pathogen discovery program with accurate genome relative abundance estimation. Bioinformatics 29: 391-392. doi:10.1093/bioinformatics/bts684.
dc.identifier.issn13674803
dc.identifier.pmid23193222
dc.identifier.doi10.1093/bioinformatics/bts684
dc.identifier.urihttp://hdl.handle.net/10754/325436
dc.description.abstractSummary: READSCAN is a highly scalable parallel program to identify non-host sequences (of potential pathogen origin) and estimate their genome relative abundance in high-throughput sequence datasets. READSCAN accurately classified human and viral sequences on a 20.1 million reads simulated dataset in <27 min using a small Beowulf compute cluster with 16 nodes (Supplementary Material). Availability: http://cbrc.kaust.edu.sa/readscan Contact: or raeece.naeem@gmail.com Supplementary information: Supplementary data are available at Bioinformatics online. 2012 The Author(s).
dc.language.isoen
dc.publisherOxford University Press (OUP)
dc.rights.urihttp://creativecommons.org/licenses/by/3.0
dc.subjectalgorithm
dc.subjectcarcinoma
dc.subjectcolorectal tumor
dc.subjectcomputer program
dc.subjectFusobacterium nucleatum
dc.subjectgenetics
dc.subjecthigh throughput sequencing
dc.subjectHuman papillomavirus type 18
dc.subjectisolation and purification
dc.subjectmicrobiology
dc.subjectprostate tumor
dc.subjectvirology
dc.subjectvirus genome
dc.subjectAlgorithms
dc.subjectCarcinoma
dc.subjectColorectal Neoplasms
dc.subjectFusobacterium nucleatum
dc.subjectGenome, Viral
dc.subjectHigh-Throughput Nucleotide Sequencing
dc.subjectHuman papillomavirus 18
dc.subjectProstatic Neoplasms
dc.subjectSoftware
dc.titleREADSCAN: A fast and scalable pathogen discovery program with accurate genome relative abundance estimation
dc.typeArticle
dc.contributor.departmentComputational Bioscience Research Center (CBRC)
dc.contributor.departmentPathogen Genomics Laboratory
dc.identifier.journalBioinformatics
dc.identifier.pmcidPMC3562070
dc.eprint.versionPublisher's Version/PDF
dc.contributor.institutionUnidad Académica de Sistemas Arrecifales (Puerto Morelos), Instituto de Ciencias Del Mar y Limnología, Universidad Nacional Autõnoma de México, Puerto Morelos, QR 77580, Mexico
dc.contributor.institutionSchool of Natural Sciences, University of California Merced, 5200 North Lake Road, Merced, CA 95343, United States
dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)
kaust.personNaeem, Raeece
kaust.personRashid, Mamoon
kaust.personPain, Arnab
refterms.dateFOA2018-06-13T15:23:29Z


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