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Karel Břinda
Karel Břinda
Inria Starting Faculty, Inria/IRISA Rennes
Verified email at inria.fr - Homepage
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Cited by
Cited by
Year
Bioconda: sustainable and comprehensive software distribution for the life sciences
B Grüning, R Dale, A Sjödin, J Rowe, BA Chapman, CH Tomkins-Tinch, ...
Nature Methods 15, 475–476, 2018
8032018
Conjugative plasmids interact with insertion sequences to shape the horizontal transfer of antimicrobial resistance genes
Y Che, Y Yang, X Xu, K Břinda, MF Polz, WP Hanage, T Zhang
Proceedings of the National Academy of Sciences 118 (6), e2008731118, 2021
1742021
Rapid inference of antibiotic resistance and susceptibility by genomic neighbour typing
K Břinda, A Callendrello, K Ma, D Macfadden, R Lee, T Charalampous, ...
Nature Microbiology, 2020
116*2020
Spaced seeds improve k-mer-based metagenomic classification
K Břinda, M Sykulski, G Kucherov
Bioinformatics 31 (22), 3584-3592, 2015
1062015
Simplitigs as an efficient and scalable representation of de Bruijn graphs
K Břinda, M Baym, G Kucherov
Genome Biology 22 (96), 2021
392021
Optimal SARS-CoV-2 vaccine allocation using real-time attack-rate estimates in Rhode Island and Massachusetts
TNA Tran, NB Wikle, E Albert, H Inam, E Strong, K Brinda, SM Leighow, ...
BMC medicine 19, 1-14, 2021
32*2021
Blind friendly maps: Tactile maps for the blind as a part of the public map portal (mapy. cz)
P Červenka, K Břinda, M Hanousková, P Hofman, R Seifert
ICCHP 2016: 15th International Conference on Computers Helping People with …, 2016
30*2016
High-resolution genomic surveillance elucidates a multilayered hierarchical transfer of resistance between WWTP-and human/animal-associated bacteria
Y Che, X Xu, Y Yang, K Břinda, W Hanage, C Yang, T Zhang
Microbiome 10 (1), 16, 2022
252022
Novel computational techniques for mapping and classification of Next-Generation Sequencing data
K Břinda
Phd Thesis, Université Paris-Est, 2016
182016
RNF: a general framework to evaluate NGS read mappers
K Břinda, V Boeva, G Kucherov
Bioinformatics 32 (1), 136-139, 2016
172016
SARS-CoV-2 epidemic after social and economic reopening in three US states reveals shifts in age structure and clinical characteristics
NB Wikle, TNA Tran, B Gentilesco, SM Leighow, E Albert, ER Strong, ...
Science advances 8 (4), eabf9868, 2022
132022
Prophyle: a phylogeny-based metagenomic classifier using the Burrows-Wheeler transform
K Břinda, K Salikhov, S Pignotti, G Kucherov
Zenodo10 5281, 2017
13*2017
Abelian complexity of infinite words associated with quadratic Parry numbers
Ľ Balková, K Břinda, O Turek
Theoretical Computer Science 412 (45), 6252-6260, 2011
132011
Using Genetic Distance from Archived Samples for the Prediction of Antibiotic Resistance in Escherichia coli
DR MacFadden, B Coburn, K Břinda, A Corbeil, N Daneman, D Fisman, ...
Antimicrobial agents and chemotherapy 64 (5), 10.1128/aac. 02417-19, 2020
112020
Balances of m-bonacci words
K Břinda, E Pelantová, O Turek
Fundamenta Informaticae 132 (1), 33-61, 2014
112014
Ococo: an online variant and consensus caller
K Břinda, V Boeva, G Kucherov
arXiv preprint arXiv:1712.01146, 2017
9*2017
Dynamic read mapping and online consensus calling for better variant detection
K Břinda, V Boeva, G Kucherov
arXiv preprint arXiv:1605.09070, 2016
92016
Karel-brinda/nanosim-h: Nanosim-h 1.1. 0.4
K Břinda, C Yang, J Chu, J Linthorst, W Franus
Zenodo, 2018
7*2018
Masked superstrings as a unified framework for textual k-mer set representations
O Sladký, P Veselý, K Břinda
bioRxiv, 2023.02. 01.526717, 2023
42023
Efficient and Robust Search of Microbial Genomes via Phylogenetic Compression
K Břinda, L Lima, S Pignotti, N Quinones-Olvera, K Salikhov, R Chikhi, ...
bioRxiv, 2023
32023
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Articles 1–20