Current Topics in Medicinal Chemistry

Allen B. Reitz
Fox Chase Chemical Diversity Center, Inc.
Doylestown, PA
USA

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GARM: Genome Assembly, Reconciliation and Merging Pipeline

Author(s): Luz Mayela Soto-Jimenez, Karel Estrada, Alejandro Sanchez-Flores.

Abstract:

Over the past decades DNA sequencing technologies have been improving in aspects like quality, read length, runtimes and yields, all at a lower cost. Despite these improvements, genome assembly remains a challenge in genome sequencing projects, especially when different sequencing platforms are used. At the present, there is no program that can handle and assemble different sequencing technologies better than specialized software for each of them. Also, very few protocols are available for merging results from different algorithms, technologies or both. We present GARM, (Genome Assembler, Reconciliation and Merging) a pipeline to merge assemblies from different algorithms or sequencing technologies.

Keywords: Bioinformatics, genome assembly, genome reconciliation, genome merging, meta-assembly, next-generation sequencing.

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Article Details

VOLUME: 14
ISSUE: 3
Year: 2014
Page: [418 - 424]
Pages: 7
DOI: 10.2174/1568026613666131204110628
Price: $58