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Jarno Niklas Alanko
Jarno Niklas Alanko
University of Helsinki and Dalhousie University
Verified email at helsinki.fi - Homepage
Title
Cited by
Cited by
Year
Regular languages meet prefix sorting
J Alanko, G D'Agostino, A Policriti, N Prezza
Proceedings of the Fourteenth Annual ACM-SIAM Symposium on Discrete …, 2020
402020
Wheeler languages
J Alanko, G D'Agostino, A Policriti, N Prezza
Information and Computation 281, 104820, 2021
282021
Bacterial genomic epidemiology with mixed samples
T Mäklin, T Kallonen, J Alanko, Ø Samuelsen, K Hegstad, V Mäkinen, ...
Microbial genomics 7 (11), 000691, 2021
25*2021
Tunneling on wheeler graphs
J Alanko, T Gagie, G Navarro, LS Benkner
2019 Data Compression Conference (DCC), 122-131, 2019
212019
Themisto: a scalable colored k-mer index for sensitive pseudoalignment against hundreds of thousands of bacterial genomes
JN Alanko, J Vuohtoniemi, T Mäklin, SJ Puglisi
Bioinformatics 39 (Supplement_1), i260-i269, 2023
172023
Finding all maximal perfect haplotype blocks in linear time
J Alanko, H Bannai, B Cazaux, P Peterlongo, J Stoye
Algorithms for Molecular Biology 15, 1-7, 2020
152020
Small Searchable κ-Spectra via Subset Rank Queries on the Spectral Burrows-Wheeler Transform
JN Alanko, SJ Puglisi, J Vuohtoniemi
SIAM Conference on Applied and Computational Discrete Algorithms (ACDA23 …, 2023
14*2023
A framework for space-efficient read clustering in metagenomic samples
J Alanko, F Cunial, D Belazzougui, V Mäkinen
BMC bioinformatics 18, 49-60, 2017
112017
A framework for space-efficient variable-order Markov models
F Cunial, J Alanko, D Belazzougui
Bioinformatics 35 (22), 4607-4616, 2019
102019
Algorithms and complexity on indexing elastic founder graphs
M Equi, T Norri, J Alanko, B Cazaux, AI Tomescu, V Mäkinen
32nd International Symposium on Algorithms and Computation (ISAAC 2021), 2021
9*2021
Greedy shortest common superstring approximation in compact space
J Alanko, T Norri
International Symposium on String Processing and Information Retrieval, 1-13, 2017
92017
Buffering updates enables efficient dynamic de Bruijn graphs
J Alanko, B Alipanahi, J Settle, C Boucher, T Gagie
Computational and structural biotechnology journal 19, 4067-4078, 2021
82021
Eulertigs: minimum plain text representation of k-mer sets without repetitions in linear time
S Schmidt, JN Alanko
Algorithms for Molecular Biology 18 (1), 5, 2023
62023
Syotti: scalable bait design for DNA enrichment
JN Alanko, IB Slizovskiy, D Lokshtanov, T Gagie, NR Noyes, C Boucher
Bioinformatics 38 (Supplement_1), i177-i184, 2022
62022
Matchtigs: minimum plain text representation of k-mer sets
S Schmidt, S Khan, JN Alanko, GE Pibiri, AI Tomescu
Genome Biology 24 (1), 136, 2023
52023
Linear-time minimization of wheeler DFAs
J Alanko, N Cotumaccio, N Prezza
2022 Data Compression Conference (DCC), 53-62, 2022
52022
An Experimental Performance Assessment of Galileo OSNMA
T Hammarberg, JMV García, JN Alanko, MZH Bhuiyan
Sensors 24 (2), 404, 2024
42024
Subset wavelet trees
JN Alanko, E Biagi, SJ Puglisi, J Vuohtoniemi
21st International Symposium on Experimental Algorithms (SEA 2023), 2023
42023
FGI-OSNMA: An Open Source Implementation of Galileo’s Open Service Navigation Message Authentication
T Hammarberg, JMV García, JN Alanko, MZH Bhuiyan
Proceedings of the 36th International Technical Meeting of the Satellite …, 2023
32023
HaploBlocks: efficient detection of positive selection in large population genomic datasets
B Kirsch-Gerweck, L Bohnenkämper, MT Henrichs, JN Alanko, H Bannai, ...
Molecular Biology and Evolution 40 (3), msad027, 2023
22023
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