Year: 2014
Type: preprint
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 $σ$, our algorithm uses $O(n+\frac{nσ}{w})$ space and $O(n+\frac{nσ}{w}+m\log N\log w\cdot occ)$ or $O(n+\frac{nσ}{w}\log w+m\log N\cdot occ)$ 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.
Source: arXiv (Cornell University)
Institution: Technical University of Denmark
Language: English
Subfield: Artificial Intelligence
Field: Computer Science
Domain: Physical Sciences
Open Access status: green
Funder: Danmarks Frie Forskningsfond
Award: G2346958985
OpenAlex ID: W2952869342