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1

Revisiting dictionary-based compression

Przemysław Skibiński, Szymon Grabowski, Sebastian Deorowicz

Journal:

Software: Practice and Experience

Year:

2005

Language:

english

File:

PDF, 232 KB

english, 2005

2

Solving longest common subsequence and related problems on graphical processing units

Sebastian Deorowicz

Journal:

Software: Practice and Experience

Year:

2010

Language:

english

File:

PDF, 978 KB

english, 2010

3

FaStore – a space-saving solution for raw sequencing data

Roguski, Łukasz, Ochoa, Idoia, Hernaez, Mikel, Deorowicz, Sebastian

Journal:

Year:

2018

Language:

english

File:

PDF, 513 KB

english, 2018

4

Indexing Arbitrary-Length k-Mers in Sequencing Reads

Kowalski, Tomasz, Grabowski, Szymon, Deorowicz, Sebastian, Kingsford, Carl

Journal:

Year:

2015

Language:

english

File:

PDF, 3.45 MB

english, 2015

5

CoMSA: Compression of protein multiple sequence alignment files

Deorowicz, Sebastian, Walczyszyn, Joanna, Debudaj-Grabysz, Agnieszka, Hancock, John

Journal:

Year:

2018

Language:

english

File:

PDF, 8.20 MB

english, 2018

6

[Advances in Intelligent Systems and Computing] Man-Machine Interactions 6 Volume 1061 (6th International Conference on Man-Machine Interactions, ICMMI 2019, Cracow, Poland, October 2-3, 2019) ||

Gruca, Aleksandra, Czachórski, Tadeusz, Deorowicz, Sebastian, Harężlak, Katarzyna, Piotrowska, Agnieszka

Year:

2020

Language:

english

File:

PDF, 19.73 MB

english, 2020

7

Improvements to Burrows–Wheeler compression algorithm

Sebastian Deorowicz

Journal:

Software: Practice and Experience

Year:

2000

Language:

english

File:

PDF, 145 KB

english, 2000

8

An algorithm for solving the longest increasing circular subsequence problem

Sebastian Deorowicz

Journal:

Information Processing Letters

Year:

2009

Language:

english

File:

PDF, 313 KB

english, 2009

9

How to squeeze a lexicon

Marcin G. Ciura, Sebastian Deorowicz

Journal:

Software: Practice and Experience

Year:

2001

Language:

english

File:

PDF, 149 KB

english, 2001

10

Second step algorithms in the Burrows–Wheeler compression algorithm

Sebastian Deorowicz

Journal:

Software: Practice and Experience

Year:

2002

Language:

english

File:

PDF, 138 KB

english, 2002

11

Context exhumation after the Burrows–Wheeler transform

Sebastian Deorowicz

Journal:

Information Processing Letters

Year:

2005

Language:

english

File:

PDF, 118 KB

english, 2005

12

Speeding up transposition-invariant string matching

Sebastian Deorowicz

Journal:

Information Processing Letters

Year:

2006

Language:

english

File:

PDF, 187 KB

english, 2006

13

Quadratic-time algorithm for a string constrained LCS problem

Sebastian Deorowicz

Journal:

Information Processing Letters

Year:

2012

Language:

english

File:

PDF, 117 KB

english, 2012

14

Disk-basedk-mer counting on a PC

Sebastian Deorowicz, Agnieszka Debudaj-Grabysz, Szymon Grabowski

Journal:

BMC Bioinformatics

Year:

2013

Language:

english

File:

PDF, 568 KB

english, 2013

15

A PARALLEL ALGORITHM FOR THE CONSTRAINED MULTIPLE SEQUENCE ALIGNMENT PROBLEM DESIGNED FOR GPUs

GUDYŚ, ADAM, DEOROWICZ, SEBASTIAN

Journal:

International Journal of Foundations of Computer Science

Year:

2012

Language:

english

File:

PDF, 334 KB

english, 2012

16

BIT-PARALLEL ALGORITHMS FOR THE MERGED LONGEST COMMON SUBSEQUENCE PROBLEM

DEOROWICZ, SEBASTIAN, DANEK, AGNIESZKA

Journal:

International Journal of Foundations of Computer Science

Year:

2013

Language:

english

File:

PDF, 287 KB

english, 2013

17

GDC 2: Compression of large collections of genomes

Deorowicz, Sebastian, Danek, Agnieszka, Niemiec, Marcin

Journal:

Scientific Reports

Year:

2015

Language:

english

File:

PDF, 514 KB

english, 2015

18

Comment on: “ERGC: An efficient referential genome compression algorithm”

Deorowicz, Sebastian, Grabowski, Szymon, Ochoa, Idoia, Hernaez, Mikel, Weissman, Tsachy

Journal:

Year:

2015

Language:

english

File:

PDF, 68 KB

english, 2015

19

Data compression for sequencing data

Deorowicz, Sebastian, Grabowski, Szymon

Journal:

Algorithms for Molecular Biology

Year:

2013

Language:

english

File:

PDF, 466 KB

english, 2013

20

RECKONER: read error corrector based on KMC

Długosz, Maciej, Deorowicz, Sebastian

Journal:

Year:

2017

Language:

english

File:

PDF, 91 KB

english, 2017

21

QuickProbs 2: Towards rapid construction of high-quality alignments of large protein families

Gudyś, Adam, Deorowicz, Sebastian

Journal:

Scientific Reports

Year:

2017

Language:

english

File:

PDF, 1.57 MB

english, 2017

22

FAMSA: Fast and accurate multiple sequence alignment of huge protein families

Deorowicz, Sebastian, Debudaj-Grabysz, Agnieszka, Gudyś, Adam

Journal:

Scientific Reports

Year:

2016

Language:

english

File:

PDF, 1.28 MB

english, 2016

23

KMC 3: counting and manipulating k -mer statistics

Kokot, Marek, Długosz, Maciej, Deorowicz, Sebastian

Journal:

Year:

2017

Language:

english

File:

PDF, 123 KB

english, 2017

24

GTC: how to maintain huge genotype collections in a compressed form

Danek, Agnieszka, Deorowicz, Sebastian

Journal:

Year:

2018

Language:

english

File:

PDF, 493 KB

english, 2018

25

Indexes of Large Genome Collections on a PC

Danek, Agnieszka, Deorowicz, Sebastian, Grabowski, Szymon, Moore, Stephen

Journal:

Year:

2014

Language:

english

File:

PDF, 888 KB

english, 2014

26

CoMeta: Classification of Metagenomes Using k-mers

Kawulok, Jolanta, Deorowicz, Sebastian, Golden, Aaron Alain-Jon

Journal:

Year:

2015

Language:

english

File:

PDF, 608 KB

english, 2015

27

Correction: Indexes of Large Genome Collections on a PC

Danek, Agnieszka, Deorowicz, Sebastian, Grabowski, Szymon

Journal:

Year:

2015

Language:

english

File:

PDF, 66 KB

english, 2015

28

DeltaComp: Fast and efficient compression of astronomical timelines

Deorowicz, Sebastian, Grabowski, Szymon

Journal:

Year:

2018

Language:

english

File:

PDF, 878 KB

english, 2018

29

Kmer-db: instant evolutionary distance estimation

Deorowicz, Sebastian, Gudyś, Adam, Długosz, Maciej, Kokot, Marek, Danek, Agnieszka, Birol, Inanc

Journal:

Year:

2018

Language:

english

File:

PDF, 252 KB

english, 2018

30

Whisper: Read sorting allows robust mapping of DNA sequencing data

Deorowicz, Sebastian, Debudaj-Grabysz, Agnieszka, Gudyś, Adam, Grabowski, Szymon, Birol, Inanc

Journal:

Year:

2018

Language:

english

File:

PDF, 743 KB

english, 2018

31

[Advances in Intelligent Systems and Computing] Man-Machine Interactions 6 Volume 1061 (6th International Conference on Man-Machine Interactions, ICMMI 2019, Cracow, Poland, October 2-3, 2019) ||

Gruca, Aleksandra, Czachórski, Tadeusz, Deorowicz, Sebastian, Harężlak, Katarzyna, Piotrowska, Agnieszka

Year:

2020

File:

PDF, 19.73 MB

2020

32

Environmental metagenome classification for constructing a microbiome fingerprint

Kawulok, Jolanta, Kawulok, Michal, Deorowicz, Sebastian

Journal:

Year:

2019

Language:

english

File:

PDF, 2.75 MB

english, 2019

33

Environmental metagenome classification for constructing a microbiome fingerprint

Kawulok, Jolanta, Kawulok, Michal, Deorowicz, Sebastian

Journal:

Year:

2019

File:

PDF, 2.75 MB

2019

34

FQSqueezer: k-mer-based compression of sequencing data

Deorowicz, Sebastian

Journal:

Scientific Reports

Year:

2020

Language:

english

File:

PDF, 970 KB

english, 2020

35

Author Correction: FQSqueezer: k-mer-based compression of sequencing data

Deorowicz, Sebastian

Journal:

Scientific Reports

Year:

2020

Language:

english

File:

PDF, 613 KB

english, 2020

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