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Compressed Subsequence Matching and Packed Tree Coloring

Compressed subsequence matching and packed tree coloring
Authors: Philip Bille; Patrick Hagge Cording; Inge Li Gørtz;

Compressed Subsequence Matching and Packed Tree Coloring

Abstract

We present a new algorithm for subsequence matching in grammar compressed strings. Given a grammar of size $n$ compressing a string of size $N$ and a pattern string of size $m$ over an alphabet of size $��$, our algorithm uses $O(n+\frac{n��}{w})$ space and $O(n+\frac{n��}{w}+m\log N\log w\cdot occ)$ or $O(n+\frac{n��}{w}\log w+m\log N\cdot occ)$ time. Here $w$ is the word size and $occ$ is the number of occurrences of the pattern. Our algorithm uses less space than previous algorithms and is also faster for $occ=o(\frac{n}{\log N})$ occurrences. The algorithm uses a new data structure that allows us to efficiently find the next occurrence of a given character after a given position in a compressed string. This data structure in turn is based on a new data structure for the tree color problem, where the node colors are packed in bit strings.

To appear at CPM '14

Country
Denmark
Related Organizations
Keywords

FOS: Computer and information sciences, Data structures, straight-line program, Computer Science - Data Structures and Algorithms, compressed subsequence matching, tree coloring, first colored ancestor, Data Structures and Algorithms (cs.DS), SLP, Algorithms on strings

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
9
Average
Average
Average
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bronze
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