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The Cartographer
From H&M to Gap for Lightweight BWT Merging
September 15, 2016 Β· Declared Dead Β· π arXiv.org
"No code URL or promise found in abstract"
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Authors
Giovanni Manzini
arXiv ID
1609.04618
Category
cs.DS: Data Structures & Algorithms
Citations
1
Venue
arXiv.org
Last Checked
4 months ago
Abstract
Recently, Holt and McMillan [Bionformatics 2014, ACM-BCB 2014] have proposed a simple and elegant algorithm to merge the Burrows-Wheeler transforms of a family of strings. In this paper we show that the H&M algorithm can be improved so that, in addition to merging the BWTs, it can also merge the Longest Common Prefix (LCP) arrays. The new algorithm, called Gap because of how it operates, has the same asymptotic cost as the H&M algorithm and requires additional space only for storing the LCP values.
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