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Computational pipelines

PSimScan: Algorithm and Utility for Fast Protein Similarity Search

Anna Kaznadzey, Natalia Alexandrova, Vladimir Novichkov, Denis Kaznadzey

published 07 Mar 2013

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Reliable Identification of Deep Sulcal Pits: The Effects of Scan Session, Scanner, and Surface Extraction Tool

Kiho Im, Jong-Min Lee, Seun Jeon, Jong-Heon Kim, Sang Won Seo, Duk L. Na, P. Ellen Grant

published 07 Jan 2013

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MOCAT: A Metagenomics Assembly and Gene Prediction Toolkit

Jens Roat Kultima, Shinichi Sunagawa, Junhua Li, Weineng Chen, Hua Chen, Daniel R. Mende, Manimozhiyan Arumugam, Qi Pan, Binghang Liu, Junjie Qin, Jun Wang, Peer Bork

published 17 Oct 2012

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An Integrated Pipeline for de Novo Assembly of Microbial Genomes

Andrew Tritt, Jonathan A. Eisen, Marc T. Facciotti, Aaron E. Darling

published 13 Sep 2012

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Implications of Pyrosequencing Error Correction for Biological Data Interpretation

Matthew G. Bakker, Zheng J. Tu, James M. Bradeen, Linda L. Kinkel

published 30 Aug 2012

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Inferring Phenotypic Properties from Single-Cell Characteristics

Peng Qiu

published 25 May 2012

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Two-Stage Clustering (TSC): A Pipeline for Selecting Operational Taxonomic Units for the High-Throughput Sequencing of PCR Amplicons

Xiao-Tao Jiang, Hai Zhang, Hua-Fang Sheng, Yu Wang, Yan He, Fei Zou, Hong-Wei Zhou

published 11 Jan 2012

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Sequence-Based Classification Using Discriminatory Motif Feature Selection

Hao Xiong, Daniel Capurso, Śaunak Sen, Mark R. Segal

published 10 Nov 2011

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Resources and Costs for Microbial Sequence Analysis Evaluated Using Virtual Machines and Cloud Computing

Samuel V. Angiuoli, James R. White, Malcolm Matalka, Owen White, W. Florian Fricke

published 19 Oct 2011

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An Integrated Pipeline for the Genome-Wide Analysis of Transcription Factor Binding Sites from ChIP-Seq

Eloi Mercier, Arnaud Droit, Leping Li, Gordon Robertson, Xuekui Zhang, Raphael Gottardo

published 16 Feb 2011

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Neuroimaging Study Designs, Computational Analyses and Data Provenance Using the LONI Pipeline

Ivo Dinov, Kamen Lozev, Petros Petrosyan, Zhizhong Liu, Paul Eggert, Jonathan Pierce, Alen Zamanyan, Shruthi Chakrapani, John Van Horn, D. Stott Parker, Rico Magsipoc, Kelvin Leung, Boris Gutman, Roger Woods, Arthur Toga

published 28 Sep 2010

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Validation of Coevolving Residue Algorithms via Pipeline Sensitivity Analysis: ELSC and OMES and ZNMI, Oh My!

Christopher A. Brown, Kevin S. Brown

published 01 Jun 2010

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Repertoire of microRNAs in Epithelial Ovarian Cancer as Determined by Next Generation Sequencing of Small RNA cDNA Libraries

Stacia K. Wyman, Rachael K. Parkin, Patrick S. Mitchell, Brian R. Fritz, Kathy O'Briant, Andrew K. Godwin, Nicole Urban, Charles W. Drescher, Beatrice S. Knudsen, Muneesh Tewari

published 23 Apr 2009

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