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BGREAT / de Bruijn Graph REAd mapping Tool
Enables to map reads on branching paths of the de Bruijn graph (DBG). BGREAT is designed for mapping reads on branching paths of a compacted (DBG), using reasonable resources both in terms of time and memory. Our approach follows the usual “seed and extend” paradigm. More generally, the proposed implementation applies heuristic schemes, both regarding the indexing and the alignment phases. The availability of BGREAT opens the door to its application to fundamental tasks such as read error correction, read compression, variant quantification, or haplotype reconstruction.
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