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nedwards's string-matching [40 articles]

当前文献位于 nedwards's 文献库 标签分类为 string-matching. You can also see everyone's string-matching.
  • Effect of the mutation rate and background size on the quality of pathogen identification
    Bioinformatics, Vol. 23, No. 20. (15 October 2007), pp. 2665-2671.
    by Chris Reed, Viacheslav Fofanov, Catherine Putonti, Sergei Chumakov, Tom Slezak, Yuriy Fofanov
    posted to dna-based microorganism-identification sequence-alignment string-indexing string-matching by nedwards on 2007-12-14 17:02:58 as **
  • High-throughput sequence alignment using Graphics Processing Units
    BMC Bioinformatics, Vol. 8, No. 1. (2007)
    by Michael Schatz, Cole Trapnell, Arthur Delcher, Amitabh Varshney
    posted to sequence-alignment string-matching by nedwards on 2007-12-13 14:38:34 as ** along with 10 people and 1 group Yanno jyuh sephy lusk laughcry mdimon cndewey heliopais urgi tpreeprem gatech-compgenomics
  • Fast and accurate probe selection algorithm for large genomes
    Bioinformatics Conference, 2003. CSB 2003. Proceedings of the 2003 IEEE (2003), pp. 65-74.
    by WK Sung, WH Lee
    posted to string-matching unique-oligonucleotides by nedwards on 2007-09-19 16:59:08 as **
  • Generalized String Matching
    SIAM Journal on Computing, Vol. 16, No. 6. (1987), pp. 1039-1051.
    by Karl Abrahamson
    posted to string-matching by nedwards on 2007-09-19 16:33:25 as **
  • YASS: enhancing the sensitivity of DNA similarity search.
    Nucleic Acids Res, Vol. 33, No. Web Server issue. (1 July 2005)
    by L Noé, G Kucherov
    posted to gapped-seeds locality-sensitive-hashing string-indexing string-matching by nedwards on 2007-09-05 16:11:36 as **
  • Generalized correlation functions and their applications in selection of optimal multiple spaced seeds for homology search.
    J Comput Biol, Vol. 14, No. 2. (March 2007), pp. 238-254.
    by Y Kong
    posted to gapped-seeds locality-sensitive-hashing sequence-alignment string-indexing string-matching by nedwards on 2007-09-05 16:09:43 as **
  • Space-efficient whole genome comparisons with Burrows-Wheeler transforms.
    J Comput Biol, Vol. 12, No. 4. (May 2005), pp. 407-415.
    by RA Lippert
    posted to burrows-wheeler seed-strategies sequence-alignment string-indexing string-matching by nedwards on 2007-08-30 16:08:16 as **
  • Algorithms on Strings, Trees, and Sequences: Computer Science and Computational Biology
    (15 January 1997)
    by Dan Gusfield
    posted to inexact-string-matching sequence-alignment string-indexing string-matching suffix-trees by nedwards on 2007-08-22 14:20:28 as ** along with 11 people and 1 group reyez ep161302 ujh creswick tijl grzegorz luispedro emranmohdtamil hoangmit thonnardo pool007 Pattern-Analysis
  • PatternHunter: faster and more sensitive homology search.
    Bioinformatics, Vol. 18, No. 3. (March 2002), pp. 440-445.
    by B Ma, J Tromp, M Li
    posted to gapped-seeds inexact-string-matching locality-sensitive-hashing sequence-alignment string-indexing string-matching by nedwards on 2007-08-20 15:01:41 as ** along with 6 people bozdagd nuke2005 catmat treangen natstreet DickSilver
  • Reducing storage requirements for biological sequence comparison
    Bioinformatics, Vol. 20, No. 18., 3363.
    by Michael Roberts, Wayne Hayes, Brian R Hunt, Stephen M Mount, James A Yorke
    posted to seed-strategies string-matching by nedwards on 2007-08-17 15:00:48 as **
  • Approximate Boyer-Moore string matching
    SIAM J. Comput., Vol. 22, No. 2. (April 1993), pp. 243-260.
    by Jorma Tarhio, Esko Ukkonen
    posted to inexact-string-matching sequence-alignment string-matching by nedwards on 2007-08-17 14:58:16 as **
  • Efficient algorithms for substring near neighbor problem
    (2006), pp. 1203-1212.
    by Alexandr Andoni, Piotr Indyk
    posted to inexact-string-matching locality-sensitive-hashing string-matching by nedwards on 2007-08-17 14:56:52 as ** along with 1 person tbachteler
  • Efficient Methods for Generating Optimal Single and Multiple Spaced Seeds
    (2004)
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 17:26:29 as **
  • Optimizing Multiple Seeds for Protein Homology Search
    IEEE/ACM Trans. Comput. Biol. Bioinformatics, Vol. 2, No. 1. (January 2005), pp. 29-38.
    by Daniel G Brown
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 17:26:06 as **
  • Designing multiple simultaneous seeds for DNA similarity search
    (2004), pp. 76-84.
    by Yanni Sun, Jeremy Buhler
    posted to gapped-seeds sequence-alignment string-indexing string-matching by nedwards on 2007-08-14 17:25:12 as **
  • Hardness of Optimal Spaced Seed Design
    Combinatorial Pattern Matching (2005), pp. 144-155.
    by François Nicolas, Eric Rivals
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 17:21:29 as **
  • On the complexity of the spaced seeds
    J. Comput. Syst. Sci., Vol. 73, No. 7. (November 2007), pp. 1024-1034.
    by Bin Ma, Ming Li
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 17:20:54 as **
  • Multiseed Lossless Filtration
    IEEE/ACM Trans. Comput. Biol. Bioinformatics, Vol. 2, No. 1. (January 2005), pp. 51-61.
    by Gregory Kucherov, Laurent Noe, Mikhail Roytberg
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 17:18:58 as ** along with 1 person AaronDarling
  • tPatternHunter: gapped, fast and sensitive translated homology search
    Bioinformatics, Vol. 21, No. 4. (15 February 2005), pp. 542-544.
    by Derek Kisman, Ming Li, Bin Ma, Li Wang
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 17:18:14 as **
  • FLASH: A Fast Look-Up Algorithm for String Homology
    (1993), pp. 56-64.
    by Andrea Califano, Isidore Rigoutsos
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 17:15:44 as **
  • Better filtering with gapped q-grams
    Fundam. Inf., Vol. 56, No. 1,2. (2003), pp. 51-70.
    by Stefan Burkhardt, Juha Kärkkäinen
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 17:15:03 as **
  • Finding motifs using random projections
    (2001), pp. 69-76.
    by Jeremy Buhler, Martin Tompa
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 17:14:38 as ** along with 2 people lptolik RamuAnandakrishnan
  • Designing seeds for similarity search in genomic DNA
    J. Comput. Syst. Sci., Vol. 70, No. 3. (May 2005), pp. 342-363.
    by Jeremy Buhler, Uri Keich, Yanni Sun
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 17:13:53 as **
  • Provably sensitive Indexing strategies for biosequence similarity search
    (2002), pp. 90-99.
    by Jeremy Buhler
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 17:13:17 as **
  • Efficient large-scale sequence comparison by locality-sensitive hashing
    Bioinformatics, Vol. 17, No. 5. (1 May 2001), pp. 419-428.
    by Jeremy Buhler
    posted to gapped-seeds sequence-alignment string-indexing string-matching by nedwards on 2007-08-14 17:12:49 as ** along with 1 person RamuAnandakrishnan
  • Vector seeds: an extension to spaced seeds
    J. Comput. Syst. Sci., Vol. 70, No. 3. (May 2005), pp. 364-380.
    by Brona Brejová, Daniel G Brown, Tomás Vinar
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 17:09:59 as **
  • Optimal spaced seeds for faster approximate string matching
    Journal of Computer and System Sciences, Vol. 73, No. 7. (November 2007), pp. 1035-1044.
    by Martin Farach-Colton, Gad M Landau, Cenk S Sahinalp, Dekel Tsur
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 15:54:01 as ** along with 1 person and 1 group AbnerCYH CSBBGraphTheory
  • Superiority and complexity of the spaced seeds
    (2006), pp. 444-453.
    by Ming Li, Bin Ma, Louxin Zhang
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 15:53:17 as ** along with 1 person treangen
  • Improved hit criteria for DNA local alignment.
    BMC Bioinformatics, Vol. 5 (14 October 2004)
    by L Noé, G Kucherov
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 15:51:28 as ** along with 4 people treangen bozdagd AaronDarling timflutre
  • Optimization techniques for string selection and comparison problems in genomics. Applying integer programming and heuristic algorithms for improved solutions.
    IEEE Eng Med Biol Mag, Vol. 24, No. 3. (n 2005), pp. 81-87.
    by CN Meneses, CA Oliveira, PM Pardalos
    posted to optimization sequence-alignment string-matching by nedwards on 2007-08-14 15:48:49 as **
  • A tutorial of recent developments in the seeding of local alignment.
    J Bioinform Comput Biol, Vol. 2, No. 4. (December 2004), pp. 819-842.
    by DG Brown, M Li, B Ma
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 15:48:09 as ** along with 1 person and 2 groups barry structural_bioinformatics Bioinformatics
  • A unifying framework for seed sensitivity and its application to subset seeds.
    J Bioinform Comput Biol, Vol. 4, No. 2. (April 2006), pp. 553-569.
    by G Kucherov, L Noé, M Roytberg
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 15:47:43 as **
  • Choosing the best heuristic for seeded alignment of DNA sequences.
    BMC Bioinformatics, Vol. 7, No. 1. (13 March 2006)
    by Yanni Sun, Jeremy Buhler
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 15:47:12 as ** along with 1 person eckart_bindewald
  • Indel seeds for homology search.
    Bioinformatics, Vol. 22, No. 14. (15 July 2006)
    by D Mak, Y Gelfand, G Benson
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 15:46:57 as **
  • Good spaced seeds for homology search.
    Bioinformatics, Vol. 20, No. 7. (1 May 2004), pp. 1053-1059.
    by KP Choi, F Zeng, L Zhang
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 15:46:43 as **
  • Designing multiple simultaneous seeds for DNA similarity search.
    J Comput Biol, Vol. 12, No. 6. (g 2005), pp. 847-861.
    by Y Sun, J Buhler
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 15:46:09 as ** along with 2 people nuke2005 treangen
  • Optimizing multiple spaced seeds for homology search.
    J Comput Biol, Vol. 13, No. 7. (September 2006), pp. 1355-1368.
    by J Xu, D Brown, M Li, B Ma
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 15:45:56 as **
  • Quick, practical selection of effective seeds for homology search.
    J Comput Biol, Vol. 12, No. 9. (November 2005), pp. 1137-1152.
    by FP Preparata, L Zhang, KP Choi
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 15:45:34 as **
  • Optimal spaced seeds for homologous coding regions.
    J Bioinform Comput Biol, Vol. 1, No. 4. (January 2004), pp. 595-610.
    by B Brejová, DG Brown, T Vinar
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 15:45:07 as **
  • Designing sensitive and specific spaced seeds for cross-species mRNA-to-genome alignment.
    J Comput Biol, Vol. 14, No. 2. (March 2007), pp. 113-130.
    by L Zhou, L Florea
    posted to gapped-seeds sequence-alignment string-matching by nedwards on 2007-08-14 15:44:46 as ** along with 1 person jyuh
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