UNIT 11.8 Next Generation Sequence Assembly with AMOS
Published Online: 1 MAR 2011
Copyright © 2011 by John Wiley & Sons, Inc.
Lab Protocol Title
Current Protocols in Bioinformatics
How to Cite
Treangen, T. J., Sommer, D. D., Angly, F. E., Koren, S. and Pop, M. 2011. Next Generation Sequence Assembly with AMOS. Current Protocols in Bioinformatics. 33:11.8:11.8.1–11.8.18.
- Published Online: 1 MAR 2011
- Published Print: MAR 2011
A Modular Open-Source Assembler (AMOS) was designed to offer a modular approach to genome assembly. AMOS includes a wide range of tools for assembly, including the lightweight de novo assemblers Minimus and Minimo, and Bambus 2, a robust scaffolder able to handle metagenomic and polymorphic data. This protocol describes how to configure and use AMOS for the assembly of Next Generation sequence data. Additionally, we provide three tutorial examples that include bacterial, viral, and metagenomic datasets with specific tips for improving assembly quality.Curr. Protoc. Bioinform. 33:11.8.1-11.8.18. © 2011 by John Wiley & Sons, Inc.
- next-generation sequencing;
- genome assembly;
- open source