112 citations · 167 across the 6 of their papers we have counts for
7 papers
Ococo: an online variant and consensus caller
Karel Břinda, Valentina Boeva, Gregory Kucherov
Motivation: Identifying genomic variants is an essential step for connecting genotype and phenotype. The usual approach consists of statistical inference of variants from alignment…
Blind Friendly Maps: Tactile Maps for the Blind as a Part of the Public Map Portal (Mapy.cz)
Petr Červenka, Karel Břinda, Michaela Hanousková +2
Blind people can now use maps located at Mapy.cz, thanks to the long-standing joint efforts of the ELSA Center at the Czech Technical University in Prague, the Teiresias Center at…
RNF: a general framework to evaluate NGS read mappers
Karel Břinda, Valentina Boeva, Gregory Kucherov
Aligning reads to a reference sequence is a fundamental step in numerous bioinformatics pipelines. As a consequence, the sensitivity and precision of the mapping tool, applied with…
Spaced seeds improve k-mer-based metagenomic classification
Karel Brinda, Maciej Sykulski, Gregory Kucherov
Metagenomics is a powerful approach to study genetic content of environmental samples that has been strongly promoted by NGS technologies. To cope with massive data involved in mod…
Languages of lossless seeds
Karel Břinda
Several algorithms for similarity search employ seeding techniques to quickly discard very dissimilar regions. In this paper, we study theoretical properties of lossless seeds, i.e…
Balances of -bonacci words
Karel Břinda, Edita Pelantová, Ondřej Turek
The -bonacci word is a generalization of the Fibonacci word to the -letter alphabet . It is the unique fixed point of the Pisot--type substitution…
Abelian Complexity of Infinite Words Associated with Quadratic Parry Numbers
Ľubomíra Balková, Karel Břinda, Ondřej Turek
We derive an explicit formula for the Abelian complexity of infinite words associated with quadratic Parry numbers.