Sebastian Deorowicz

72 papers Journal 57Unranked 14
YearRankTypeTitle / Venue / Authors
2024 J jnl
Efficient protein structure archiving using ProteStAr.
Bioinform.
Sebastian Deorowicz, Adam Gudys
2023 J jnl
AGC: compact representation of assembled genomes with fast queries and updates.
Bioinform.
Sebastian Deorowicz, Agnieszka Danek, Heng Li
2022 J jnl
PHIST: fast and accurate prediction of prokaryotic hosts from metagenomic viral sequences.
Bioinform.
Andrzej Zielezinski, Sebastian Deorowicz, Adam Gudys
2022 J jnl
The K-mer File Format: a standardized and compact disk representation of sets of
Bioinform.
Yoann Dufresne, Téo Lemane, Pierre Marijon, Pierre Peterlongo, Amatur Rahman, Marek Kokot, Paul Medvedev, Sebastian Deorowicz, Rayan Chikhi
2021 J jnl
VCFShark: how to squeeze a VCF file.
Bioinform.
Sebastian Deorowicz, Agnieszka Danek, Marek Kokot
2021 J jnl
Whisper 2: Indel-sensitive short read mapping.
SoftwareX
Sebastian Deorowicz, Adam Gudys
2020 — ed.
Man-Machine Interactions 6 - 6th International Conference on Man-Machine Interactions, ICMMI 2019, Cracow, Poland, October 2-3, 2019
ICMMI
Aleksandra Gruca, Tadeusz Czachórski, Sebastian Deorowicz, Katarzyna Harezlak, Agnieszka Piotrowska
2019 J jnl
CoMSA: compression of protein multiple sequence alignment files.
Bioinform.
Sebastian Deorowicz, Joanna Walczyszyn, Agnieszka Debudaj-Grabysz
2019 J jnl
GTShark: genotype compression in large projects.
Bioinform.
Sebastian Deorowicz, Agnieszka Danek
2019 J jnl
Kmer-db: instant evolutionary distance estimation.
Bioinform.
Sebastian Deorowicz, Adam Gudys, Maciej Dlugosz, Marek Kokot, Agnieszka Danek
2019 J jnl
Whisper: read sorting allows robust mapping of DNA sequencing data.
Bioinform.
Sebastian Deorowicz, Agnieszka Debudaj-Grabysz, Adam Gudys, Szymon Grabowski
2018 J jnl
FaStore: a space-saving solution for raw sequencing data.
Bioinform.
Lukasz Roguski, Idoia Ochoa, Mikel Hernaez, Sebastian Deorowicz
2018 J jnl
GTC: how to maintain huge genotype collections in a compressed form.
Bioinform.
Agnieszka Danek, Sebastian Deorowicz
2017 — conf
Even Faster Sorting of (Not Only) Integers.
ICMMI
Marek Kokot, Sebastian Deorowicz, Maciej Dlugosz
2017 J jnl
Even better correction of genome sequencing data.
CoRR
Maciej Dlugosz, Sebastian Deorowicz, Marek Kokot
2017 J jnl
Even faster sorting of (not only) integers.
CoRR
Marek Kokot, Sebastian Deorowicz, Maciej Dlugosz
2017 — conf
FM-index for Dummies.
BDAS
Szymon Grabowski, Marcin Raniszewski, Sebastian Deorowicz
2017 — conf
Improvements in DNA Reads Correction.
ICMMI
Maciej Dlugosz, Sebastian Deorowicz, Marek Kokot
2017 J jnl
KMC 3: counting and manipulating k-mer statistics.
Bioinform.
Marek Kokot, Maciej Dlugosz, Sebastian Deorowicz
2017 J jnl
KMC 3: counting and manipulating k-mer statistics.
CoRR
Marek Kokot, Maciej Dlugosz, Sebastian Deorowicz
2017 J jnl
RECKONER: read error corrector based on KMC.
Bioinform.
Maciej Dlugosz, Sebastian Deorowicz
2017 — conf
Sorting Data on Ultra-Large Scale with RADULS - New Incarnation of Radix Sort.
BDAS
Marek Kokot, Sebastian Deorowicz, Agnieszka Debudaj-Grabysz
2016 J jnl
Aligning 415 519 proteins in less than two hours on PC.
CoRR
Sebastian Deorowicz, Agnieszka Debudaj-Grabysz, Adam Gudys
2016 J jnl
Comment on: 'ERGC: an efficient referential genome compression algorithm'.
Bioinform.
Sebastian Deorowicz, Szymon Grabowski, Idoia Ochoa, Mikel Hernaez, Tsachy Weissman
2016 J jnl
RECKONER: Read Error Corrector Based on KMC.
CoRR
Maciej Dlugosz, Sebastian Deorowicz
2016 J jnl
Sorting Data on Ultra-Large Scale with RADULS. New Incarnation of Radix Sort.
CoRR
Marek Kokot, Sebastian Deorowicz, Agnieszka Debudaj-Grabysz
2015 J jnl
Disk-based compression of data from genome sequencing.
Bioinform.
Szymon Grabowski, Sebastian Deorowicz, Lukasz Roguski
2015 J jnl
FM-index for dummies.
CoRR
Szymon Grabowski, Marcin Raniszewski, Sebastian Deorowicz
2015 J jnl
GDC 2: Compression of large collections of genomes.
CoRR
Sebastian Deorowicz, Agnieszka Danek, Marcin Niemiec
2015 J jnl
Indexing arbitrary-length k-mers in sequencing reads.
CoRR
Tomasz Marek Kowalski, Szymon Grabowski, Sebastian Deorowicz
2015 J jnl
KMC 2: fast and resource-frugal
Bioinform.
Sebastian Deorowicz, Marek Kokot, Szymon Grabowski, Agnieszka Debudaj-Grabysz
2015 J jnl
QuickProbs 2: towards rapid construction of high-quality alignments of large protein families.
CoRR
Adam Gudys, Sebastian Deorowicz
2014 — conf
An Effective Way of Storing and Accessing Very Large Transition Matrices Using Multi-core CPU and GPU Architectures.
BDAS
Bozena Wieczorek, Marcin Polomski, Piotr Pecka, Sebastian Deorowicz
2014 — conf
An Improved Algorithm for Fast and Accurate Classification of Sequences.
BDAS
Jolanta Kawulok, Sebastian Deorowicz
2014 J jnl
DSRC 2 - Industry-oriented compression of FASTQ files.
Bioinform.
Lukasz Roguski, Sebastian Deorowicz
2014 J jnl
Disk-based genome sequencing data compression.
CoRR
Szymon Grabowski, Sebastian Deorowicz, Lukasz Roguski
2014 J jnl
Efficient algorithms for the longest common subsequence in k-length substrings.
Inf. Process. Lett.
Sebastian Deorowicz, Szymon Grabowski
2014 J jnl
Indexing large genome collections on a PC.
CoRR
Agnieszka Danek, Sebastian Deorowicz, Szymon Grabowski
2014 J jnl
KMC 2: Fast and resource-frugal k-mer counting.
CoRR
Sebastian Deorowicz, Marek Kokot, Szymon Grabowski, Agnieszka Debudaj-Grabysz
2013 — conf
Bit-Parallel Algorithm for the Block Variant of the Merged Longest Common Subsequence Problem.
ICMMI
Agnieszka Danek, Sebastian Deorowicz
2013 J jnl
Bit-Parallel Algorithms for the Merged Longest Common Subsequence Problem.
Int. J. Found. Comput. Sci.
Sebastian Deorowicz, Agnieszka Danek
2013 J jnl
Data compression for sequencing data.
Algorithms Mol. Biol.
Sebastian Deorowicz, Szymon Grabowski
2013 J jnl
Disk-based k-mer counting on a PC.
BMC Bioinform.
Sebastian Deorowicz, Agnieszka Debudaj-Grabysz, Szymon Grabowski
2013 J jnl
Efficient algorithms for the longest common subsequence in $k$-length substrings.
CoRR
Sebastian Deorowicz, Szymon Grabowski
2013 — conf
Fast and Simple Circular Pattern Matching.
ICMMI
Robert Susik, Szymon Grabowski, Sebastian Deorowicz
2013 J jnl
Genome compression: a novel approach for large collections.
Bioinform.
Sebastian Deorowicz, Agnieszka Danek, Szymon Grabowski
2013 — conf
Kalign-LCS - A More Accurate and Faster Variant of Kalign2 Algorithm for the Multiple Sequence Alignment Problem.
ICMMI
Sebastian Deorowicz, Agnieszka Debudaj-Grabysz, Adam Gudys
2013 — conf
Subcubic Algorithms for the Sequence Excluded LCS Problem.
ICMMI
Sebastian Deorowicz, Szymon Grabowski
2012 J jnl
A Cover-Merging-Based Algorithm for the Longest Increasing Subsequence in a Sliding Window Problem.
Comput. Informatics
Sebastian Deorowicz
2012 J jnl
A Parallel Algorithm for the Constrained Multiple Sequence Alignment Problem Designed for GPUs.
Int. J. Found. Comput. Sci.
Adam Gudys, Sebastian Deorowicz
2012 J jnl
Quadratic-time algorithm for a string constrained LCS problem.
Inf. Process. Lett.
Sebastian Deorowicz
2012 J jnl
miRNEST database: an integrative approach in microRNA search and annotation.
Nucleic Acids Res.
Michal Wojciech Szczesniak, Sebastian Deorowicz, Jakub Gapski, Lukasz Kaczynski, Izabela Makalowska
2011 — conf
A Parallel GPU-Designed Algorithm for the Constrained Multiple Sequence Alignment Problem.
ICMMI
Adam Gudys, Sebastian Deorowicz
2011 J jnl
Compression of DNA sequence reads in FASTQ format.
Bioinform.
Sebastian Deorowicz, Szymon Grabowski
2011 — conf
Efficient Representation of Transition Matrix in the Markov Process Modeling of Computer Networks.
ICMMI
Piotr Pecka, Sebastian Deorowicz, Mateusz Nowak
2011 J jnl
Engineering Relative Compression of Genomes
CoRR
Szymon Grabowski, Sebastian Deorowicz
2011 J jnl
Quadratic-time Algorithm for the String Constrained LCS Problem
CoRR
Sebastian Deorowicz
2011 J jnl
Robust relative compression of genomes with random access.
Bioinform.
Sebastian Deorowicz, Szymon Grabowski
2010 J jnl
Bit-Parallel Algorithm for the Constrained Longest Common Subsequence Problem.
Fundam. Informaticae
Sebastian Deorowicz
2010 J jnl
Constrained Longest Common Subsequence Computing Algorithms in Practice.
Comput. Informatics
Sebastian Deorowicz, Joanna Obstój
2010 J jnl
Solving longest common subsequence and related problems on graphical processing units.
Softw. Pract. Exp.
Sebastian Deorowicz
2009 J jnl
A hybrid algorithm for the longest common transposition-invariant subsequence problem.
Comput. Informatics
Sebastian Deorowicz, Szymon Grabowski
2009 J jnl
An algorithm for solving the longest increasing circular subsequence problem.
Inf. Process. Lett.
Sebastian Deorowicz
2009 — conf
Computing the Longest Common Transposition-Invariant Subsequence with GPU.
ICMMI
Sebastian Deorowicz
2009 — conf
On Two Variants of the Longest Increasing Subsequence Problem.
ICMMI
Sebastian Deorowicz, Szymon Grabowski
2008 J jnl
Efficient Preprocessing for Web Log Compression.
Int. J. Comput.
Sebastian Deorowicz, Szymon Grabowski
2006 J jnl
Speeding up transposition-invariant string matching.
Inf. Process. Lett.
Sebastian Deorowicz
2005 J jnl
Context exhumation after the Burrows-Wheeler transform.
Inf. Process. Lett.
Sebastian Deorowicz
2005 J jnl
Revisiting dictionary-based compression.
Softw. Pract. Exp.
Przemyslaw Skibinski, Szymon Grabowski, Sebastian Deorowicz
2002 J jnl
Second step algorithms in the Burrows-Wheeler compression algorithm.
Softw. Pract. Exp.
Sebastian Deorowicz
2001 J jnl
How to squeeze a lexicon.
Softw. Pract. Exp.
Marcin Ciura, Sebastian Deorowicz
2000 J jnl
Improvements to Burrows-Wheeler compression algorithm.
Softw. Pract. Exp.
Sebastian Deorowicz