RAMICS: Trainable, high-speed and biologically relevant alignment of high-throughput sequencing reads to coding DNA

Loading...
Thumbnail Image

Date

2014

Journal Title

Journal ISSN

Volume Title

Publisher

Oxford University Press

Abstract

The challenge presented by high-throughput sequencing necessitates the development of novel tools for accurate alignment of reads to reference sequences. Current approaches focus on using heuristics to map reads quickly to large genomes, rather than generating highly accurate alignments in coding regions. Such approaches are, thus, unsuited for applications such as amplicon-based analysis and the realignment phase of exome sequencing and RNA-seq, where accurate and biologically relevant alignment of coding regions is critical. To facilitate such analyses, we have developed a novel tool, RAMICS, that is tailored to mapping large numbers of sequence reads to short lengths (<10 000 bp) of coding DNA.

Description

Keywords

Bioinfomatics, Coding, South Africa, Nucleic acids

Citation

Wright, I. A., & Travers, S. A. (2014). RAMICS: Trainable, high-speed and biologically relevant alignment of high-throughput sequencing reads to coding DNA. Nucleic Acids Research, 42 (13). 10.1093/nar/gku473