title: GATB: Genome Assembly & Analysis Tool Box.
abstract: BACKGROUND
  Efficient and fast next-generation sequencing (NGS) algorithms are essential to analyze the terabytes of data generated by the NGS machines. A serious bottleneck can be the design of such algorithms, as they require sophisticated data structures and advanced hardware implementation.
  
  
  RESULTS
  We propose an open-source library dedicated to genome assembly and analysis to fasten the process of developing efficient software. The library is based on a recent optimized de-Bruijn graph implementation allowing complex genomes to be processed on desktop computers using fast algorithms with low memory footprints.
  
  
  METHODS
  The GATB library is written in C++ and is available at the following Web site http://gatb.inria.fr under the A-GPL license.
  
  
  BACKGROUND
  lavenier@irisa.fr
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: INRIA/IRISA/GenScale, Campus de Beaulieu, 35042 Rennes Cedex, France and Department of Computer Science and Engineering, Pennsylvania State University, PA 16802, USA.
authors.forename: Erwan
authors.initials: E
authors.lastname: Drezen
authors.affiliation: INRIA/IRISA/GenScale, Campus de Beaulieu, 35042 Rennes Cedex, France and Department of Computer Science and Engineering, Pennsylvania State University, PA 16802, USA.
authors.forename: Guillaume
authors.initials: G
authors.lastname: Rizk
authors.affiliation: INRIA/IRISA/GenScale, Campus de Beaulieu, 35042 Rennes Cedex, France and Department of Computer Science and Engineering, Pennsylvania State University, PA 16802, USA.
authors.forename: Rayan
authors.initials: R
authors.lastname: Chikhi
authors.affiliation: INRIA/IRISA/GenScale, Campus de Beaulieu, 35042 Rennes Cedex, France and Department of Computer Science and Engineering, Pennsylvania State University, PA 16802, USA.
authors.forename: Charles
authors.initials: C
authors.lastname: Deltel
authors.affiliation: INRIA/IRISA/GenScale, Campus de Beaulieu, 35042 Rennes Cedex, France and Department of Computer Science and Engineering, Pennsylvania State University, PA 16802, USA.
authors.forename: Claire
authors.initials: C
authors.lastname: Lemaitre
authors.affiliation: INRIA/IRISA/GenScale, Campus de Beaulieu, 35042 Rennes Cedex, France and Department of Computer Science and Engineering, Pennsylvania State University, PA 16802, USA.
authors.forename: Pierre
authors.initials: P
authors.lastname: Peterlongo
authors.affiliation: INRIA/IRISA/GenScale, Campus de Beaulieu, 35042 Rennes Cedex, France and Department of Computer Science and Engineering, Pennsylvania State University, PA 16802, USA.
authors.forename: Dominique
authors.initials: D
authors.lastname: Lavenier
mesh_terms: D000465:Algorithms; D056808:Biostatistics / Q000379:methods*; D003196:Computer Graphics; D015894:Genome, Human / Q000235:genetics; D023281:Genomics / Q000379:methods*; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D006801:Humans; D012984:Software