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ORCIDJuha Kärkkäinen
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- affiliation: University of Helsinki, Finland
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2020 – today
- 2024
[j28]Hideo Bannai, Juha Kärkkäinen, Dominik Köppl
, Marcin Piatkowski:
Constructing and indexing the bijective and extended Burrows-Wheeler transform. Inf. Comput. 297: 105153 (2024)- 2023
- [j27]Juha Kärkkäinen, Marcin Piatkowski, Simon J. Puglisi:
String inference from longest-common-prefix array. Theor. Comput. Sci. 942: 180-199 (2023) - 2021
- [j26]Djamal Belazzougui, Manuel Cáceres, Travis Gagie, Pawel Gawrychowski, Juha Kärkkäinen, Gonzalo Navarro, Alberto Ordóñez Pereira, Simon J. Puglisi, Yasuo Tabei:
Block trees. J. Comput. Syst. Sci. 117: 1-22 (2021) - [j25]Golnaz Badkobeh, Pawel Gawrychowski, Juha Kärkkäinen, Simon J. Puglisi, Bella Zhukova:
Tight upper and lower bounds on suffix tree breadth. Theor. Comput. Sci. 854: 63-67 (2021) - [c59]Hideo Bannai, Juha Kärkkäinen, Dominik Köppl, Marcin Piatkowski:
Constructing the Bijective and the Extended Burrows-Wheeler Transform in Linear Time. CPM 2021: 7:1-7:16 - 2020
- [j24]Djamal Belazzougui, Fabio Cunial, Juha Kärkkäinen, Veli Mäkinen:
Linear-time String Indexing and Analysis in Small Space. ACM Trans. Algorithms 16(2): 17:1-17:54 (2020)
2010 – 2019
- 2019
- [j23]Simon Gog, Juha Kärkkäinen, Dominik Kempa, Matthias Petri, Simon J. Puglisi:
Fixed Block Compression Boosting in FM-Indexes: Theory and Practice. Algorithmica 81(4): 1370-1391 (2019) - [j22]Juha Kärkkäinen, Dominik Kempa:
Better External Memory LCP Array Construction. ACM J. Exp. Algorithmics 24(1): 1.3:1-1.3:27 (2019) - [c58]Hideo Bannai, Juha Kärkkäinen, Dominik Köppl, Marcin Piatkowski:
Indexing the Bijective BWT. CPM 2019: 17:1-17:14 - [i18]Hideo Bannai, Juha Kärkkäinen, Dominik Köppl, Marcin Piatkowski:
Constructing the Bijective BWT. CoRR abs/1911.06985 (2019) - 2018
- [j21]Hideo Bannai, Travis Gagie, Shunsuke Inenaga, Juha Kärkkäinen, Dominik Kempa, Marcin Piatkowski, Shiho Sugimoto:
Diverse Palindromic Factorization is NP-Complete. Int. J. Found. Comput. Sci. 29(2): 143-164 (2018) - [c57]José Fuentes-Sepúlveda, Juha Kärkkäinen, Dmitry Kosolobov, Simon J. Puglisi:
Run Compressed Rank/Select for Large Alphabets. DCC 2018: 315-324 - 2017
- [j20]Travis Gagie, Aleksi Hartikainen, Kalle Karhu, Juha Kärkkäinen, Gonzalo Navarro, Simon J. Puglisi, Jouni Sirén:
Document retrieval on repetitive string collections. Inf. Retr. J. 20(3): 253-291 (2017) - [j19]Juha Kärkkäinen, Dominik Kempa:
Engineering a Lightweight External Memory Suffix Array Construction Algorithm. Math. Comput. Sci. 11(2): 137-149 (2017) - [c56]Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi, Bella Zhukova:
Engineering External Memory Induced Suffix Sorting. ALENEX 2017: 98-108 - [c55]Juha Kärkkäinen, Marcin Piatkowski, Simon J. Puglisi:
String Inference from Longest-Common-Prefix Array. ICALP 2017: 62:1-62:14 - [c54]Golnaz Badkobeh, Juha Kärkkäinen, Simon J. Puglisi, Bella Zhukova:
On Suffix Tree Breadth. SPIRE 2017: 68-73 - [c53]Juha Kärkkäinen, Dominik Kempa, Yuto Nakashima, Simon J. Puglisi, Arseny M. Shur:
On the Size of Lempel-Ziv and Lyndon Factorizations. STACS 2017: 45:1-45:13 - [c52]Juha Kärkkäinen, Dominik Kempa:
Engineering External Memory LCP Array Construction: Parallel, In-Place and Large Alphabet. SEA 2017: 17:1-17:14 - [e2]Juha Kärkkäinen, Jakub Radoszewski, Wojciech Rytter:
28th Annual Symposium on Combinatorial Pattern Matching, CPM 2017, July 4-6, 2017, Warsaw, Poland. LIPIcs 78, Schloss Dagstuhl - Leibniz-Zentrum für Informatik 2017, ISBN 978-3-95977-039-2 [contents] - [i17]José Fuentes-Sepúlveda, Juha Kärkkäinen, Dmitry Kosolobov, Simon J. Puglisi:
Run Compressed Rank/Select for Large Alphabets. CoRR abs/1711.02910 (2017) - 2016
- [j18]Ali Alatabbi, Jacqueline W. Daykin, Juha Kärkkäinen, M. Sohel Rahman, W. F. Smyth:
V-Order: New combinatorial properties & a simple comparison algorithm. Discret. Appl. Math. 215: 41-46 (2016) - [j17]Juha Kärkkäinen, Dominik Kempa:
LCP Array Construction in External Memory. ACM J. Exp. Algorithmics 21(1): 1.7:1-1.7:22 (2016) - [j16]Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi:
Lazy Lempel-Ziv Factorization Algorithms. ACM J. Exp. Algorithmics 21(1): 2.4:1-2.4:19 (2016) - [j15]Juha Kärkkäinen, Dominik Kempa, Marcin Piatkowski:
Tighter bounds for the sum of irreducible LCP values. Theor. Comput. Sci. 656: 265-278 (2016) - [c51]Simon Gog, Juha Kärkkäinen, Dominik Kempa, Matthias Petri, Simon J. Puglisi:
Faster, Minuter. DCC 2016: 53-62 - [c50]Juha Kärkkäinen, Dominik Kempa:
Faster External Memory LCP Array Construction. ESA 2016: 61:1-61:16 - [c49]Juha Kärkkäinen, Dominik Kempa:
LCP Array Construction Using O(sort(n)) (or Less) I/Os. SPIRE 2016: 204-217 - [c48]Djamal Belazzougui, Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi:
Lempel-Ziv Decoding in External Memory. SEA 2016: 63-74 - [r4]Juha Kärkkäinen:
Multidimensional String Matching. Encyclopedia of Algorithms 2016: 1369-1372 - [r3]Juha Kärkkäinen:
Suffix Array Construction. Encyclopedia of Algorithms 2016: 2141-2144 - [i16]Djamal Belazzougui, Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi:
Lempel-Ziv Decoding in External Memory. CoRR abs/1602.00329 (2016) - [i15]Travis Gagie, Aleksi Hartikainen, Kalle Karhu, Juha Kärkkäinen, Gonzalo Navarro, Simon J. Puglisi, Jouni Sirén:
Document Retrieval on Repetitive String Collections. CoRR abs/1605.09362 (2016) - [i14]Juha Kärkkäinen, Marcin Piatkowski, Simon J. Puglisi:
String Inference from the LCP Array. CoRR abs/1606.04573 (2016) - [i13]Djamal Belazzougui, Fabio Cunial, Juha Kärkkäinen, Veli Mäkinen:
Linear-time string indexing and analysis in small space. CoRR abs/1609.06378 (2016) - [i12]Juha Kärkkäinen, Dominik Kempa, Yuto Nakashima, Simon J. Puglisi, Arseny M. Shur:
On the Size of Lempel-Ziv and Lyndon Factorizations. CoRR abs/1611.08898 (2016) - 2015
- [j14]Maxime Crochemore, Roberto Grossi, Juha Kärkkäinen, Gad M. Landau:
Computing the Burrows-Wheeler transform in place and in small space. J. Discrete Algorithms 32: 44-52 (2015) - [c47]Juha Kärkkäinen, Dominik Kempa, Marcin Piatkowski:
Tighter Bounds for the Sum of Irreducible LCP Values. CPM 2015: 316-328 - [c46]Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi:
Parallel External Memory Suffix Sorting. CPM 2015: 329-342 - [c45]Djamal Belazzougui, Travis Gagie, Pawel Gawrychowski, Juha Kärkkäinen, Alberto Ordóñez Pereira, Simon J. Puglisi, Yasuo Tabei:
Queries on LZ-Bounded Encodings. DCC 2015: 83-92 - [c44]Travis Gagie, Aleksi Hartikainen, Juha Kärkkäinen, Gonzalo Navarro, Simon J. Puglisi, Jouni Sirén:
Document Counting in Compressed Space. DCC 2015: 103-112 - [c43]Hideo Bannai, Travis Gagie, Shunsuke Inenaga, Juha Kärkkäinen, Dominik Kempa, Marcin Piatkowski, Simon J. Puglisi, Shiho Sugimoto:
Diverse Palindromic Factorization Is NP-complete. DLT 2015: 85-96 - [i11]Travis Gagie, Shunsuke Inenaga, Juha Kärkkäinen, Dominik Kempa, Marcin Piatkowski, Simon J. Puglisi, Shiho Sugimoto:
Diverse Palindromic Factorization is NP-Complete. CoRR abs/1503.04045 (2015) - 2014
- [j13]Simon Gog, Kalle Karhu, Juha Kärkkäinen, Veli Mäkinen, Niko Välimäki:
Multi-pattern matching with bidirectional indexes. J. Discrete Algorithms 24: 26-39 (2014) - [j12]Jens Stoye, Juha Kärkkäinen:
Editorial. J. Discrete Algorithms 25: 1 (2014) - [j11]Gabriele Fici, Travis Gagie, Juha Kärkkäinen, Dominik Kempa:
A subquadratic algorithm for minimum palindromic factorization. J. Discrete Algorithms 28: 41-48 (2014) - [c42]Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi:
String Range Matching. CPM 2014: 232-241 - [c41]Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi:
Lempel-Ziv Parsing in External Memory. DCC 2014: 153-162 - [c40]Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi:
Hybrid Compression of Bitvectors for the FM-Index. DCC 2014: 302-311 - [c39]Juha Kärkkäinen, Dominik Kempa:
Engineering a Lightweight External Memory Suffix Array Construction Algorithm. ICABD 2014: 53-60 - [c38]Travis Gagie, Pawel Gawrychowski, Juha Kärkkäinen, Yakov Nekrich, Simon J. Puglisi:
LZ77-Based Self-indexing with Faster Pattern Matching. LATIN 2014: 731-742 - [c37]Tomohiro I, Juha Kärkkäinen, Dominik Kempa:
Faster Sparse Suffix Sorting. STACS 2014: 386-396 - [c36]Juha Kärkkäinen, Dominik Kempa:
LCP Array Construction in External Memory. SEA 2014: 412-423 - [i10]Gabriele Fici, Travis Gagie, Juha Kärkkäinen, Dominik Kempa:
A Subquadratic Algorithm for Minimum Palindromic Factorization. CoRR abs/1403.2431 (2014) - [i9]Travis Gagie, Aleksi Hartikainen, Juha Kärkkäinen, Gonzalo Navarro, Simon J. Puglisi, Jouni Sirén:
Document Counting in Practice. CoRR abs/1409.6780 (2014) - [i8]Djamal Belazzougui, Travis Gagie, Pawel Gawrychowski, Juha Kärkkäinen, Alberto Ordóñez Pereira, Simon J. Puglisi, Yasuo Tabei:
Queries on LZ-Bounded Encodings. CoRR abs/1412.0967 (2014) - 2013
- [j10]Travis Gagie, Juha Kärkkäinen, Gonzalo Navarro, Simon J. Puglisi:
Colored range queries and document retrieval. Theor. Comput. Sci. 483: 36-50 (2013) - [c35]Maxime Crochemore, Roberto Grossi, Juha Kärkkäinen, Gad M. Landau:
A Constant-Space Comparison-Based Algorithm for Computing the Burrows-Wheeler Transform. CPM 2013: 74-82 - [c34]Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi:
Linear Time Lempel-Ziv Factorization: Simple, Fast, Small. CPM 2013: 189-200 - [c33]Juha Kärkkäinen, German Tischler:
Near in Place Linear Time Minimum Redundancy Coding. DCC 2013: 411-420 - [c32]Djamal Belazzougui, Fabio Cunial, Juha Kärkkäinen, Veli Mäkinen:
Versatile Succinct Representations of the Bidirectional Burrows-Wheeler Transform. ESA 2013: 133-144 - [c31]Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi:
Crochemore's String Matching Algorithm: Simplification, Extensions, Applications. Stringology 2013: 168-175 - [c30]Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi:
Lightweight Lempel-Ziv Parsing. SEA 2013: 139-150 - [i7]Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi:
Lightweight Lempel-Ziv Parsing. CoRR abs/1302.1064 (2013) - [i6]Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi:
Lempel-Ziv Parsing in External Memory. CoRR abs/1307.1428 (2013) - 2012
- [c29]Simon Gog, Kalle Karhu, Juha Kärkkäinen, Veli Mäkinen, Niko Välimäki:
Multi-pattern Matching with Bidirectional Indexes. COCOON 2012: 384-395 - [c28]Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi:
Slashing the Time for BWT Inversion. DCC 2012: 99-108 - [c27]Travis Gagie, Pawel Gawrychowski, Juha Kärkkäinen, Yakov Nekrich, Simon J. Puglisi:
A Faster Grammar-Based Self-index. LATA 2012: 240-251 - [c26]Travis Gagie, Kalle Karhu, Juha Kärkkäinen, Veli Mäkinen, Leena Salmela, Jorma Tarhio:
Indexed Multi-pattern Matching. LATIN 2012: 399-407 - [c25]Juha Kärkkäinen, Pekka Mikkola, Dominik Kempa:
Grammar Precompression Speeds Up Burrows-Wheeler Compression. SPIRE 2012: 330-335 - [e1]Juha Kärkkäinen, Jens Stoye:
Combinatorial Pattern Matching - 23rd Annual Symposium, CPM 2012, Helsinki, Finland, July 3-5, 2012. Proceedings. Lecture Notes in Computer Science 7354, Springer 2012, ISBN 978-3-642-31264-9 [contents] - [i5]Juha Kärkkäinen, Dominik Kempa, Simon J. Puglisi:
Linear Time Lempel-Ziv Factorization: Simple, Fast, Small. CoRR abs/1212.2952 (2012) - 2011
- [c24]Juha Kärkkäinen, Simon J. Puglisi:
Cache Friendly Burrows-Wheeler Inversion. CCP 2011: 38-42 - [c23]Travis Gagie, Juha Kärkkäinen:
Counting Colours in Compressed Strings. CPM 2011: 197-207 - [c22]Juha Kärkkäinen, Simon J. Puglisi:
Fixed Block Compression Boosting in FM-Indexes. SPIRE 2011: 174-184 - [i4]Juha Kärkkäinen, Simon J. Puglisi:
Fixed Block Compression Boosting in FM-Indexes. CoRR abs/1104.3810 (2011) - [i3]Travis Gagie, Juha Kärkkäinen, Yakov Nekrich, Simon J. Puglisi:
A Compressed Self-Index for Genomic Databases. CoRR abs/1111.1355 (2011) - 2010
- [c21]Juha Kärkkäinen, Simon J. Puglisi:
Medium-Space Algorithms for Inverse BWT. ESA (1) 2010: 451-462 - [i2]Travis Gagie, Juha Kärkkäinen:
Counting Colours in Compressed Strings. CoRR abs/1011.3480 (2010) - [i1]Travis Gagie, Kalle Karhu, Juha Kärkkäinen, Veli Mäkinen, Leena Salmela:
Pattern Kits. CoRR abs/1011.3491 (2010)
2000 – 2009
- 2009
- [c20]Juha Kärkkäinen, Giovanni Manzini, Simon J. Puglisi:
Permuted Longest-Common-Prefix Array. CPM 2009: 181-192 - 2008
- [j9]Roman Dementiev, Juha Kärkkäinen, Jens Mehnert, Peter Sanders:
Better external memory suffix array construction. ACM J. Exp. Algorithmics 12: 3.4:1-3.4:24 (2008) - [c19]Juha Kärkkäinen, Tommi Rantala:
Engineering Radix Sort for Strings. SPIRE 2008: 3-14 - [r2]Juha Kärkkäinen:
Suffix Array Construction. Encyclopedia of Algorithms 2008 - [r1]Juha Kärkkäinen, Esko Ukkonen:
Multidimensional String Matching. Encyclopedia of Algorithms 2008 - 2007
- [j8]Juha Kärkkäinen:
Fast BWT in small space by blockwise suffix sorting. Theor. Comput. Sci. 387(3): 249-257 (2007) - [c18]Juha Kärkkäinen, Joong Chae Na:
Faster Filters for Approximate String Matching. ALENEX 2007 - 2006
- [j7]Juha Kärkkäinen, Peter Sanders, Stefan Burkhardt:
Linear work suffix array construction. J. ACM 53(6): 918-936 (2006) - 2005
- [j6]Marc Fontaine, Stefan Burkhardt, Juha Kärkkäinen:
Bdd-based analysis of gapped q-gram Filters. Int. J. Found. Comput. Sci. 16(6): 1121-1134 (2005) - [c17]Roman Dementiev, Juha Kärkkäinen, Jens Mehnert, Peter Sanders:
Better External Memory Suffix Array Construction. ALENEX/ANALCO 2005: 86-97 - [c16]Juha Kärkkäinen:
Alphabets in generic programming. Stringology 2005: 163-173 - 2004
- [c15]Marc Fontaine, Stefan Burkhardt, Juha Kärkkäinen:
BDD-Based Analysis of Gapped q-Gram Filters. Stringology 2004: 56-68 - 2003
- [j5]Stefan Burkhardt, Juha Kärkkäinen:
Better Filtering with Gapped q-Grams. Fundam. Informaticae 56(1-2): 51-70 (2003) - [j4]Juha Kärkkäinen, Gonzalo Navarro, Esko Ukkonen:
Approximate string matching on Ziv-Lempel compressed text. J. Discrete Algorithms 1(3-4): 313-338 (2003) - [c14]Stefan Burkhardt, Juha Kärkkäinen:
Fast Lightweight Suffix Array Construction and Checking. CPM 2003: 55-69 - [c13]Juha Kärkkäinen, Peter Sanders:
Simple Linear Work Suffix Array Construction. ICALP 2003: 943-955 - 2002
- [c12]Stefan Burkhardt, Juha Kärkkäinen:
One-Gapped q-Gram Filtersfor Levenshtein Distance. CPM 2002: 225-234 - [c11]Juha Kärkkäinen, S. Srinivasa Rao:
Full-Text Indexes in External Memory. Algorithms for Memory Hierarchies 2002: 149-170 - [c10]Juha Kärkkäinen:
Computing the Threshold for q-Gram Filters. SWAT 2002: 348-357 - 2001
- [c9]Stefan Burkhardt, Juha Kärkkäinen:
Better Filtering with Gapped q-Grams. CPM 2001: 73-85 - 2000
- [c8]Juha Kärkkäinen, Gonzalo Navarro, Esko Ukkonen:
Approximate String Matching over Ziv-Lempel Compressed Text. CPM 2000: 195-209
1990 – 1999
- 1999
- [j3]Ykä Huhtala, Juha Kärkkäinen, Pasi Porkka, Hannu Toivonen:
TANE: An Efficient Algorithm for Discovering Functional and Approximate Dependencies. Comput. J. 42(2): 100-111 (1999) - [j2]Juha Kärkkäinen, Esko Ukkonen:
Two- and Higher-Dimensional Pattern Matching in Optimal Expected Time. SIAM J. Comput. 29(2): 571-589 (1999) - [c7]Ykä Huhtala, Juha Kärkkäinen, Hannu Toivonen:
Mining for similarities in aligned time series using wavelets. Data Mining and Knowledge Discovery: Theory, Tools, and Technology 1999: 150-160 - 1998
- [j1]Juha Kärkkäinen, Erkki Sutinen:
Lempel-Ziv Index for q-Grams. Algorithmica 21(1): 137-154 (1998) - [c6]Ykä Huhtala, Juha Kärkkäinen, Pasi Porkka, Hannu Toivonen:
Efficient Discovery of Functional and Approximate Dependencies Using Partitions. ICDE 1998: 392-401 - 1997
- [c5]Gautam Das, Rudolf Fleischer, Leszek Gasieniec, Dimitrios Gunopulos, Juha Kärkkäinen:
Episode Matching. CPM 1997: 12-27 - 1996
- [c4]Juha Kärkkäinen, Esko Ukkonen:
Sparse Suffix Trees. COCOON 1996: 219-230 - [c3]Juha Kärkkäinen, Erkki Sutinen:
Lempel-Ziv Index for q-Grams. ESA 1996: 378-391 - 1995
- [c2]Juha Kärkkäinen:
Suffix Cactus: A Cross between Suffix Tree and Suffix Array. CPM 1995: 191-204 - 1994
- [c1]Juha Kärkkäinen, Esko Ukkonen:
Two and Higher Dimensional Pattern Matching in Optimal Expected Time. SODA 1994: 715-723
Coauthor Index
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