A parameterization study of short read assembly using the velvet assembler

Abstract

In this study, we examine approaches to the problem of assembling large, contiguous sections of genetic code from short reads generated from laboratory techniques. We explore the Eulerian Path approach in detail, utilizing a de Bruijn Graph, and demonstrate current software technologies and algorithms using a sample genome. We investigate the input parameters of Velvet and discuss their implications. © 2012 Springer-Verlag GmbH Berlin Heidelberg.