Section: New Software and Platforms

GATB-Core

Genome Assembly and Analysis Tool Box

Keywords: Bioinformatics - NGS - Genomics - Genome assembling

Functional Description

The GATB-Core library aims to lighten the design of NGS algorithms. It offers a panel of high-level optimized building blocks to speed-up the development of NGS tools related to genome assembly and/or genome analysis. The underlying data structure is the de Bruijn graph, and the general parallelism model is multithreading. The GATB library targets standard computing resources such as current multicore processor (laptop computer, small server) with a few GB of memory. From high-level API, NGS programming designers can rapidly elaborate their own software based on domain state-of-the-art algorithms and data structures. The GATB-Core library is written in C++.

• Participants: Dominique Lavenier, Guillaume Rizk, Pierre Peterlongo, Charles Deltel, Patrick Durand and Claire Lemaitre

• Contact: Dominique Lavenier

• URL: http://gatb.inria.fr/