Niko Välimäki

31 papers A* 2B 5C 3Misc 1Journal 13Unranked 6

Year	Rank	Type	Title / Venue / Authors
2018	J	`jnl`	Towards pan-genome read alignment to improve variation calling. BMC Genom. Daniel Valenzuela, Tuukka Norri, Niko Välimäki, Esa Pitkänen, Veli Mäkinen
2015	J	`jnl`	Fast in-memory XPath search using compressed indexes. Softw. Pract. Exp. Diego Arroyuelo, Francisco Claude, Sebastian Maneth, Veli Mäkinen, Gonzalo Navarro, Kim Nguyen, Jouni Sirén, Niko Välimäki
2014	J	`jnl`	Exploration and retrieval of whole-metagenome sequencing samples. Bioinform. Sohan Seth, Niko Välimäki, Samuel Kaski, Antti Honkela
2014	J	`jnl`	Indexing Graphs for Path Queries with Applications in Genome Research. IEEE ACM Trans. Comput. Biol. Bioinform. Veli Mäkinen, Niko Välimäki, Jouni Sirén
2014	J	`jnl`	Multi-pattern matching with bidirectional indexes. J. Discrete Algorithms Simon Gog, Kalle Karhu, Juha Kärkkäinen, Veli Mäkinen, Niko Välimäki
2014	—	`conf`	Random projection based clustering for population genomics. IEEE BigData Sotiris K. Tasoulis, Lu Cheng, Niko Välimäki, Nicholas J. Croucher, Simon R. Harris, William P. Hanage, Teemu Roos, Jukka Corander
2013	J	`jnl`	Exploration and retrieval of whole-metagenome sequencing samples. CoRR Sohan Seth, Niko Välimäki, Samuel Kaski, Antti Honkela
2013	—	`conf`	Scalable and Versatile ISBRA Niko Välimäki, Eric Rivals
2012	—	`—`	Applications of Compressed Data Structures on Sequences and Structured Data. Niko Välimäki
2012	J	`jnl`	Approximate all-pairs suffix/prefix overlaps. Inf. Comput. Niko Välimäki, Susana Ladra, Veli Mäkinen
2012	C	`conf`	Distributed String Mining for High-Throughput Sequencing Data. WABI Niko Välimäki, Simon J. Puglisi
2012	—	`conf`	Efficient Path Kernels for Reaction Function Prediction. BIOINFORMATICS Markus Heinonen, Niko Välimäki, Veli Mäkinen, Juho Rousu
2012	B	`conf`	Forbidden Patterns. LATIN Johannes Fischer, Travis Gagie, Tsvi Kopelowitz, Moshe Lewenstein, Veli Mäkinen, Leena Salmela, Niko Välimäki
2012	B	`conf`	Least Random Suffix/Prefix Matches in Output-Sensitive Time. CPM Niko Välimäki
2012	Misc	`conf`	Multi-pattern Matching with Bidirectional Indexes. COCOON Simon Gog, Kalle Karhu, Juha Kärkkäinen, Veli Mäkinen, Niko Välimäki
2011	J	`jnl`	Fast scaffolding with small independent mixed integer programs. Bioinform. Leena Salmela, Veli Mäkinen, Niko Välimäki, Johannes Ylinen, Esko Ukkonen
2011	C	`conf`	Indexing Finite Language Representation of Population Genotypes. WABI Jouni Sirén, Niko Välimäki, Veli Mäkinen
2010	B	`conf`	Approximate All-Pairs Suffix/Prefix Overlaps. CPM Niko Välimäki, Susana Ladra, Veli Mäkinen
2010	A*	`conf`	Fast in-memory XPath search using compressed indexes. ICDE Diego Arroyuelo, Francisco Claude, Sebastian Maneth, Veli Mäkinen, Gonzalo Navarro, Kim Nguyen, Jouni Sirén, Niko Välimäki
2010	J	`jnl`	Indexing Finite Language Representation of Population Genotypes CoRR Jouni Sirén, Niko Välimäki, Veli Mäkinen
2010	J	`jnl`	Storage and Retrieval of Highly Repetitive Sequence Collections. J. Comput. Biol. Veli Mäkinen, Gonzalo Navarro, Jouni Sirén, Niko Välimäki
2010	—	`conf`	Unified View of Backward Backtracking in Short Read Mapping. Algorithms and Applications Veli Mäkinen, Niko Välimäki, Antti Laaksonen, Riku Katainen
2009	J	`jnl`	Engineering a compressed suffix tree implementation. ACM J. Exp. Algorithmics Niko Välimäki, Veli Mäkinen, Wolfgang Gerlach, Kashyap Dixit
2009	J	`jnl`	Fast In-Memory XPath Search over Compressed Text and Tree Indexes CoRR Diego Arroyuelo, Francisco Claude, Sebastian Maneth, Veli Mäkinen, Gonzalo Navarro, Kim Nguyen, Jouni Sirén, Niko Välimäki
2009	B	`conf`	Storage and Retrieval of Individual Genomes. RECOMB Veli Mäkinen, Gonzalo Navarro, Jouni Sirén, Niko Välimäki
2008	C	`conf`	Run-Length Compressed Indexes Are Superior for Highly Repetitive Sequence Collections. SPIRE Jouni Sirén, Niko Välimäki, Veli Mäkinen, Gonzalo Navarro
2008	A*	`conf`	Space Efficient String Mining under Frequency Constraints. ICDM Johannes Fischer, Veli Mäkinen, Niko Välimäki
2008	—	`conf`	Storage and Retrieval of Individual Genomes. Structure-Based Compression of Complex Massive Data Veli Mäkinen, Gonzalo Navarro, Jouni Sirén, Niko Välimäki
2007	J	`jnl`	Compressed suffix tree - a basis for genome-scale sequence analysis. Bioinform. Niko Välimäki, Wolfgang Gerlach, Kashyap Dixit, Veli Mäkinen
2007	—	`conf`	Engineering a Compressed Suffix Tree Implementation. WEA Niko Välimäki, Wolfgang Gerlach, Kashyap Dixit, Veli Mäkinen
2007	B	`conf`	Space-Efficient Algorithms for Document Retrieval. CPM Niko Välimäki, Veli Mäkinen