Details

Autor(en) / Beteiligte

• Expósito, Roberto R
• Veiga, Jorge
• González-Domínguez, Jorge
• Touriño, Juan
• Hancock, John

Titel

MarDRe: efficient MapReduce-based removal of duplicate DNA reads in the cloud

Ist Teil von

• Bioinformatics (Oxford, England), 2017-09, Vol.33 (17), p.2762-2764

Ort / Verlag

England

Erscheinungsjahr

2017

Link zum Volltext

Quelle

MEDLINE

Beschreibungen/Notizen

• This article presents MarDRe, a de novo cloud-ready duplicate and near-duplicate removal tool that can process single- and paired-end reads from FASTQ/FASTA datasets. MarDRe takes advantage of the widely adopted MapReduce programming model to fully exploit Big Data technologies on cloud-based infrastructures. Written in Java to maximize cross-platform compatibility, MarDRe is built upon the open-source Apache Hadoop project, the most popular distributed computing framework for scalable Big Data processing. On a 16-node cluster deployed on the Amazon EC2 cloud platform, MarDRe is up to 8.52 times faster than a representative state-of-the-art tool. Source code in Java and Hadoop as well as a user's guide are freely available under the GNU GPLv3 license at http://mardre.des.udc.es . rreye@udc.es.