Near-optimal quantum algorithms for bounded edit distance and Lempel-Ziv factorization

D Gibney, C **, T Kociumaka, SV Thankachan - Proceedings of the 2024 …, 2024 - SIAM
Measuring sequence similarity and compressing texts are among the most fundamental
tasks in string algorithms. In this work, we develop near-optimal quantum algorithms for the …

On repetitiveness measures of Thue-Morse words

K Kutsukake, T Matsumoto, Y Nakashima… - … Symposium on String …, 2020 - Springer
We show that the size γ (t_n) of the smallest string attractor of the n-th Thue-Morse word t_n
is 4 for any n ≥ 4, disproving the conjecture by Mantaci et al. ICTCS 2019 that it is n. We …

Bijective BWT based compression schemes

G Badkobeh, H Bannai, D Köppl - International Symposium on String …, 2024 - Springer
We investigate properties of the bijective Burrows-Wheeler transform (BBWT). We show that
for any string w, a bidirectional macro scheme of size O (r B) can be induced from the BBWT …

Finding an optimal alphabet ordering for Lyndon factorization is hard

D Gibney, SV Thankachan - 38th International Symposium on …, 2021 - drops.dagstuhl.de
This work establishes several strong hardness results on the problem of finding an ordering
on a string's alphabet that either minimizes or maximizes the number of factors in that string's …

Can Formal Languages help Pangenomics to represent and analyze multiple genomes?

P Bonizzoni, C De Felice, Y Pirola, R Rizzi… - … on Developments in …, 2022 - Springer
Graph pangenomics is a new emerging field in computational biology that is changing the
traditional view of a reference genome from a linear sequence to a new paradigm: a …

On the longest common prefix of suffixes in an inverse Lyndon factorization and other properties

P Bonizzoni, C De Felice, R Zaccagnino… - Theoretical Computer …, 2021 - Elsevier
The Lyndon factorization of a word has been largely studied and recently variants of it have
been introduced and investigated with different motivations. In particular, the canonical …

Lyndon words versus inverse Lyndon words: Queries on suffixes and bordered words

P Bonizzoni, C De Felice, R Zaccagnino… - … Conference on Language …, 2020 - Springer
The Lyndon factorization of a word has been extensively studied in different contexts and
several variants of it have been proposed. In particular, the canonical inverse Lyndon …

On the approximation ratio of LZ-End to LZ77

T Ideue, T Mieno, M Funakoshi, Y Nakashima… - … Symposium on String …, 2021 - Springer
A family of Lempel-Ziv factorizations is a well-studied string structure. The LZ-End
factorization is a member of the family that achieved faster extraction of any substrings (Kreft …

Compressibility-aware quantum algorithms on strings

D Gibney, SV Thankachan - arxiv preprint arxiv:2302.07235, 2023 - arxiv.org
Sublinear time quantum algorithms have been established for many fundamental problems
on strings. This work demonstrates that new, faster quantum algorithms can be designed …

[PDF][PDF] Bijective BWT based Compression Schemes

D Köppl - koeppl.github.io
We investigate properties of the bijective Burrows-Wheeler transform (BBWT). We show that
for any string w, a bidirectional macro scheme of size O (rB) can be induced from the BBWT …