2 citations · 3 across the 9 of their papers we have counts for
5 papers · 1 filter
Faster run-length compressed suffix arrays
Nathaniel K. Brown, Travis Gagie, Giovanni Manzini +2
We first review how we can store a run-length compressed suffix array (RLCSA) for a text of length over an alphabet of size whose Burrows-Wheeler Transform (BWT) consis…
Suffixient Arrays: a New Efficient Suffix Array Compression Technique
Davide Cenzato, Lore Depuydt, Travis Gagie +4
The Suffix Array is a classic text index enabling on-line pattern matching queries via simple binary search. The main drawback of the Suffix Array is that it takes linear space in…
Algorithms for Galois Words: Detection, Factorization, and Rotation
Diptarama Hendrian, Dominik Köppl, Ryo Yoshinaka +1
Lyndon words are extensively studied in combinatorics on words -- they play a crucial role on upper bounding the number of runs a word can have [Bannai+, SIAM J. Comput.'17]. We ca…
Computing the LCP Array of a Labeled Graph
Jarno Alanko, Davide Cenzato, Nicola Cotumaccio +3
The LCP array is an important tool in stringology, allowing to speed up pattern matching algorithms and enabling compact representations of the suffix tree. Recently, Conte et al.…
Taxonomic classification with maximal exact matches in KATKA kernels and minimizer digests
Dominika Draesslerová, Omar Ahmed, Travis Gagie +4
For taxonomic classification, we are asked to index the genomes in a phylogenetic tree such that later, given a DNA read, we can quickly choose a small subtree likely to contain th…