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  • 标题:Linking BWT and XBW via Aho-Corasick Automaton: Applications to Run-Length Encoding
  • 本地全文:下载
  • 作者:Bastien Cazaux ; Eric Rivals
  • 期刊名称:LIPIcs : Leibniz International Proceedings in Informatics
  • 电子版ISSN:1868-8969
  • 出版年度:2019
  • 卷号:128
  • 页码:1-20
  • DOI:10.4230/LIPIcs.CPM.2019.24
  • 出版社:Schloss Dagstuhl -- Leibniz-Zentrum fuer Informatik
  • 摘要:The boom of genomic sequencing makes compression of sets of sequences inescapable. This underlies the need for multi-string indexing data structures that helps compressing the data. The most prominent example of such data structures is the Burrows-Wheeler Transform (BWT), a reversible permutation of a text that improves its compressibility. A similar data structure, the eXtended Burrows-Wheeler Transform (XBW), is able to index a tree labelled with alphabet symbols. A link between a multi-string BWT and the Aho-Corasick automaton has already been found and led to a way to build a XBW from a multi-string BWT. We exhibit a stronger link between a multi-string BWT and a XBW by using the order of the concatenation in the multi-string. This bijective link has several applications: first, it allows one to build one data structure from the other; second, it enables one to compute an ordering of the input strings that optimises a Run-Length measure (i.e., the compressibility) of the BWT or of the XBW.
  • 关键词:Data Structure; Algorithm; Aho-Corasick Tree; compression; RLE
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