GATB
Computational Tool
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General Information
DescriptionGenome Assembly & Analysis Tool Box
Homepagehttp://gatb.inria.fr
Publications
GATB: Genome Assembly & Analysis Tool Box
Erwan Drezen; Guillaume Rizk; Rayan Chikhi; Charles Deltel; Claire Lemaitre; Pierre Peterlongo; Dominique Lavenier
Motivation: 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.
Availability and implementation: The GATB library is written in C++ and is available at the following Web site http://gatb.inria.fr under the A-GPL license.
Contact: lavenier@irisa.fr
Supplementary information: Supplementary data are available at Bioinformatics online.
DOI: https://doi.org/10.1093/bioinformatics/btu406
Metrics:
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