UNIT 11.5 Using the Velvet de novo Assembler for Short-Read Sequencing Technologies
Published Online: 1 SEP 2010
Copyright © 2010 by John Wiley & Sons, Inc.
Lab Protocol Title
Current Protocols in Bioinformatics
How to Cite
Zerbino, D. R. 2010. Using the Velvet de novo Assembler for Short-Read Sequencing Technologies. Current Protocols in Bioinformatics. 31:11.5:11.5.1–11.5.12.
- Published Online: 1 SEP 2010
- Published Print: SEP 2010
The Velvet de novo assembler was designed to build contigs and eventually scaffolds from short-read sequencing data. This protocol describes how to use Velvet, interpret its output, and tune its parameters for optimal results. It also covers practical issues such as configuration, using the VelvetOptimiser routine, and processing colorspace data. Curr. Protoc. Bioinform. 31:11.5.1-11.5.12. © 2010 by John Wiley & Sons, Inc.
- Genome assembly;
- Next-Generation Sequencing;
- de Bruijn Graphs