External memory BWT and LCP computation for sequence collections with applications.

Conclusions: We prove that our algorithm performs O ( n maxlcp ) sequential I/Os, where n is the total length of the collection and maxlcp is the maximum LCP value. The experimental results show that our algorithm is only slightly slower than the state of the art for short sequences but it is up to 40 times faster for longer sequences or when the available RAM is at least equal to the size of the input. PMID: 30899322 [PubMed]
Source: Algorithms for Molecular Biology : AMB - Category: Molecular Biology Authors: Tags: Algorithms Mol Biol Source Type: research

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