most citedNumeric Lyndon-based feature embedding of sequencing reads for machine learning approaches

7 citations · 8 across the 4 of their papers we have counts for

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cs.DS2023

Wheeler maps

Andrej Baláz, Travis Gagie, Adrián Goga +4

Motivated by challenges in pangenomic read alignment, we propose a generalization of Wheeler graphs that we call Wheeler maps. A Wheeler map stores a text and an assignme…

cs.DS2023

Prefix-free graphs and suffix array construction in sublinear space

Andrej Baláž, Alessia Petescia

A recent paradigm shift in bioinformatics from a single reference genome to a pangenome brought with it several graph structures. These graph structures must implement operations,…

cs.DS2022★ 1 cited

MARIA: Multiple-alignment -index with aggregation

Adrián Goga, Andrej Baláž, Alessia Petescia +1

There now exist compact indexes that can efficiently list all the occurrences of a pattern in a dataset consisting of thousands of genomes, or even all the occurrences of all the p…