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Authors: Gaurav Thareja 1 ; Vivek Kumar 1 ; Mike Zyskowski 2 ; Simon Mercer 2 and Bob Davidson 2

Affiliations: 1 Aditi Technologies, India ; 2 Microsoft Research, United States

ISBN: 978-989-8425-36-2

Keyword(s): DNA Sequence Assembly, Genomics, de Bruijn Graph, Scaffold Generation.

Related Ontology Subjects/Areas/Topics: Algorithms and Software Tools ; Bioinformatics ; Biomedical Engineering ; Genomics and Proteomics ; Next Generation Sequencing ; Sequence Analysis

Abstract: Recent technological advances in DNA sequencing technology are resulting in ever-larger quantities of sequence information being made available to an increasingly broad segment of the scientific and clinical community. This is in turn driving the need for standard, rapid and easy to use tools for genomic reconstruction and analysis. As a step towards addressing this challenge, we present PadeNA (Parallel de Novo Assembler), a parallelized DNA sequence assembler with a graphical user interface. PadeNA is designed using interface-driven architecture to facilitate code reusability and extensibility, and is provided as part of the open source Microsoft Biology Foundation. Installers and documentation are available at http://research.microsoft.com/bio/.

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Paper citation in several formats:
Thareja, G.; Kumar, V.; Zyskowski, M.; Mercer, S. and Davidson, B. (2011). PadeNA: A PARALLEL DE NOVO ASSEMBLER.In Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2011) ISBN 978-989-8425-36-2, pages 196-203. DOI: 10.5220/0003164301960203

@conference{bioinformatics11,
author={Gaurav Thareja. and Vivek Kumar. and Mike Zyskowski. and Simon Mercer. and Bob Davidson.},
title={PadeNA: A PARALLEL DE NOVO ASSEMBLER},
booktitle={Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2011)},
year={2011},
pages={196-203},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0003164301960203},
isbn={978-989-8425-36-2},
}

TY - CONF

JO - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms - Volume 1: BIOINFORMATICS, (BIOSTEC 2011)
TI - PadeNA: A PARALLEL DE NOVO ASSEMBLER
SN - 978-989-8425-36-2
AU - Thareja, G.
AU - Kumar, V.
AU - Zyskowski, M.
AU - Mercer, S.
AU - Davidson, B.
PY - 2011
SP - 196
EP - 203
DO - 10.5220/0003164301960203

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