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Using the Velvet de novo assembler for short-read sequencing technologies

Current Protocols in Bioinformatics

Sep 14, 2010

Daniel R Zerbino

Abstract

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...read more

Mentioned in this Paper

Sequencing
Computer Programs and Programming
Sequence Determinations, DNA
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565
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Using the Velvet de novo assembler for short-read sequencing technologies

Current Protocols in Bioinformatics

Sep 14, 2010

Daniel R Zerbino

PMID: 20836074

DOI: 10.1002/0471250953.bi1105s31

Abstract

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...read more

Mentioned in this Paper

Sequencing
Computer Programs and Programming
Sequence Determinations, DNA
1
565
1

Feeds With Similar Papers

European Bioinformatics Institute

European Bioinformatics Institute focuses both on data resource development and investigator-driven research in the field of bioinformatics. Follow this feed to stay up to date on research by this institute.

Related Papers

BMC Bioinformatics

QSRA: a quality-value guided de novo short read assembler

BMC BioinformaticsFebruary 26, 2009
Douglas W BryantTodd C Mockler
BMC Bioinformatics

Crystallizing short-read assemblies around seeds

BMC BioinformaticsFebruary 28, 2009
Mohammad Sajjad HossainSteven Skiena
Paper Details
References
  • References10
  • Citations102
1
  • References10
  • Citations102
12345...

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