-
1
-
-
0016942292
-
A Space-economical Suffix Tree Construction Algorithm
-
McCreight EM,. A Space-economical Suffix Tree Construction Algorithm. Journal of the ACM 1976; 23 (2): 262-272.
-
(1976)
Journal of the ACM
, vol.23
, Issue.2
, pp. 262-272
-
-
McCreight, E.M.1
-
2
-
-
38149018071
-
PATRICIA-Practical algorithm to retrieve information coded in alphanumeric
-
Morrison D,. PATRICIA-Practical algorithm to retrieve information coded in alphanumeric. Journal of the ACM 1968; 15 (4): 514-534.
-
(1968)
Journal of the ACM
, vol.15
, Issue.4
, pp. 514-534
-
-
Morrison, D.1
-
6
-
-
78249288044
-
-
Available at: [February]
-
NCBI Genebank overview. Available at: http://www.ncbi.nlm.nih.gov/ Genbank/ [February 2008].
-
(2008)
NCBI Genebank Overview
-
-
-
7
-
-
33644875299
-
GenBank
-
D20
-
Benson D, Karsch-Mizrachi I, Lipman D, Ostell J, Wheeler D,. GenBank. Nucleic Acids Research 2006; 34: D16-D20.
-
(2006)
Nucleic Acids Research
, vol.34
, pp. 16
-
-
Benson, D.1
Karsch-Mizrachi, I.2
Lipman, D.3
Ostell, J.4
Wheeler, D.5
-
8
-
-
0001321490
-
External memory algorithms and data structures: Dealing with massive data
-
Vitter J,. External memory algorithms and data structures: dealing with massive data. ACM Computing Surveys 2001; 33 (2): 209-271.
-
(2001)
ACM Computing Surveys
, vol.33
, Issue.2
, pp. 209-271
-
-
Vitter, J.1
-
9
-
-
0028484243
-
Algorithms for parallel memory: Two-level memories
-
Vitter J, Shriver M,. Algorithms for parallel memory: Two-level memories. Algorithmica 1994; 12: 110-147.
-
(1994)
Algorithmica
, vol.12
, pp. 110-147
-
-
Vitter, J.1
Shriver, M.2
-
10
-
-
0142253939
-
A theoretical and experimental study on the construction of suffix arrays in external memory
-
Crauser A, Ferragina P,. A theoretical and experimental study on the construction of suffix arrays in external memory. Algorithmica 2002; 32 (1): 1-35.
-
(2002)
Algorithmica
, vol.32
, Issue.1
, pp. 1-35
-
-
Crauser, A.1
Ferragina, P.2
-
13
-
-
84947716322
-
Optimal logarithmic time randomized suffix tree construction
-
(Lecture Notes in Computer Science, vol. 1099). Springer: Berlin
-
Farach M, Muthukrishnan S,. Optimal logarithmic time randomized suffix tree construction. Proceedings of the 23rd International Colloquium on Automata, Languages and Programming (Lecture Notes in Computer Science, vol. 1099). Springer: Berlin, 1996; 550-561.
-
(1996)
Proceedings of the 23rd International Colloquium on Automata, Languages and Programming
, pp. 550-561
-
-
Farach, M.1
Muthukrishnan, S.2
-
14
-
-
25844465842
-
Practical methods for constructing suffix trees
-
Tian Y, Tata S, Hankins R, Patel J,. Practical methods for constructing suffix trees. The VLDB Journal 2005; 14 (3): 281-299.
-
(2005)
The VLDB Journal
, vol.14
, Issue.3
, pp. 281-299
-
-
Tian, Y.1
Tata, S.2
Hankins, R.3
Patel, J.4
-
15
-
-
34250183733
-
Compressed suffix trees with full functionality
-
Sadakane K,. Compressed suffix trees with full functionality. Theory of Computing Systems 2007; 41 (4): 589-607.
-
(2007)
Theory of Computing Systems
, vol.41
, Issue.4
, pp. 589-607
-
-
Sadakane, K.1
-
16
-
-
45849125008
-
An(other) entropy-bounded compressed suffix tree
-
(Lecture Notes in Computer Science, vol. 5029). Springer: Berlin
-
Fischer J, Mäkinen V, Navarro G,. An(other) entropy-bounded compressed suffix tree. Proceedings of the CPM-08 (Lecture Notes in Computer Science, vol. 5029). Springer: Berlin, 2008; 152-165.
-
(2008)
Proceedings of the CPM-08
, pp. 152-165
-
-
Fischer, J.1
Mäkinen, V.2
Navarro, G.3
-
17
-
-
45849125001
-
Dynamic fully-compressed suffix trees
-
(Lecture Notes in Computer Science, vol. 5029). Springer: Berlin
-
Russo L, Navarro G, Oliveira A,. Dynamic fully-compressed suffix trees. Proceedings of the CPM'08 (Lecture Notes in Computer Science, vol. 5029). Springer: Berlin, 2008; 191-203.
-
(2008)
Proceedings of the CPM'08
, pp. 191-203
-
-
Russo, L.1
Navarro, G.2
Oliveira, A.3
-
18
-
-
37249088071
-
Engineering a compressed suffix tree implementation
-
(Lecture Notes in Computer Science, vol. 4525). Springer: Berlin
-
Välimäki N, Gerlach W, Dixit K, Mäkinen V,. Engineering a compressed suffix tree implementation. Proceedings of the 6th Workshop on Experimental Algorithms (Lecture Notes in Computer Science, vol. 4525). Springer: Berlin, 2007; 217-228.
-
(2007)
Proceedings of the 6th Workshop on Experimental Algorithms
, pp. 217-228
-
-
Välimäki, N.1
Gerlach, W.2
Dixit, K.3
Mäkinen, V.4
-
19
-
-
34047188666
-
Compressed suffix tree-A basis for genome-scale sequence analysis
-
Välimäki N, Gerlach W, Dixit K, Mäkinen V,. Compressed suffix tree-A basis for genome-scale sequence analysis. Bioinformatics 2007; 23: 629-630.
-
(2007)
Bioinformatics
, vol.23
, pp. 629-630
-
-
Välimäki, N.1
Gerlach, W.2
Dixit, K.3
Mäkinen, V.4
-
20
-
-
0001704377
-
On-line construction of suffix trees
-
Ukkonen E,. On-line construction of suffix trees. Algoritmica 1995; 14 (3): 249-260.
-
(1995)
Algoritmica
, vol.14
, Issue.3
, pp. 249-260
-
-
Ukkonen, E.1
-
21
-
-
0001553729
-
From Ukkonen to McCreight and Weiner: A unifying view of linear-time suffix tree construction
-
Giegerich R, Kurtz S,. From Ukkonen to McCreight and Weiner: A unifying view of linear-time suffix tree construction. Algorithmica 2012; 19 (3): 331-353.
-
(2012)
Algorithmica
, vol.19
, Issue.3
, pp. 331-353
-
-
Giegerich, R.1
Kurtz, S.2
-
22
-
-
2442603117
-
A hybrid indexing method for approximate string matching
-
Navarro G, Baeza-Yates R,. A hybrid indexing method for approximate string matching. Journal of Discrete Algorithms 2000; 1 (1): 205-209.
-
(2000)
Journal of Discrete Algorithms
, vol.1
, Issue.1
, pp. 205-209
-
-
Navarro, G.1
Baeza-Yates, R.2
-
25
-
-
84944328392
-
A database index to large biological sequences
-
Hunt E, Atkinson MP, Irving RW,. A database index to large biological sequences. The VLDB Journal 2001; 7 (3): 139-148.
-
(2001)
The VLDB Journal
, vol.7
, Issue.3
, pp. 139-148
-
-
Hunt, E.1
Atkinson, M.P.2
Irving, R.W.3
-
26
-
-
38249009042
-
Self-alignments in words and their applications
-
Apostolico A, Szpankowski W,. Self-alignments in words and their applications. Journal of Algorithms 1992; 13 (3): 446-467.
-
(1992)
Journal of Algorithms
, vol.13
, Issue.3
, pp. 446-467
-
-
Apostolico, A.1
Szpankowski, W.2
-
27
-
-
35248834611
-
Distributed and paged suffix trees for large genetic databases
-
Michocán, Mexico
-
Clifford R, Sergot MJ,. Distributed and paged suffix trees for large genetic databases. Proceedings of the CPM-2003, Morelia, Michocán, Mexico, 2003; 70-82.
-
(2003)
Proceedings of the CPM-2003, Morelia
, pp. 70-82
-
-
Clifford, R.1
Sergot, M.J.2
-
28
-
-
18544370220
-
Distributed suffix trees
-
Clifford R,. Distributed suffix trees. Journal of Discrete Algorithms 2005; 3 (2-4): 176-197.
-
(2005)
Journal of Discrete Algorithms
, vol.3
, Issue.2-4
, pp. 176-197
-
-
Clifford, R.1
-
29
-
-
78249254499
-
Suffix trees on words
-
Andersson A, Larsson NJ, Swanson K,. Suffix trees on words. Proceedings of the CPM-1996 (Lecture Notes in Computer Science, vol. 1075), 1996; 102-115.
-
(1996)
Proceedings of the CPM-1996 (Lecture Notes in Computer Science)
, vol.1075
, pp. 102-115
-
-
Andersson, A.1
Larsson, N.J.2
Swanson, K.3
-
30
-
-
76249123658
-
-
Available at: [February]
-
Homo sapiens Chromosome 1 (36.3). Available at: http://www.ncbi.nlm.nih. gov/mapview/maps.cgi?taxid=9606chr=1 [February 2009].
-
(2009)
Homo Sapiens Chromosome 1 (36.3)
-
-
-
32
-
-
0004104056
-
-
Prentice-Hall, Inc.: Englewood Cliffs, NJ
-
Garcia-Molina H, Ullman JD, Widom JD,. Database System Implementation. Prentice-Hall, Inc.: Englewood Cliffs, NJ, 1999; 43-48.
-
(1999)
Database System Implementation
, pp. 43-48
-
-
Garcia-Molina, H.1
Ullman, J.D.2
Widom, J.D.3
-
33
-
-
70349231590
-
A new method for indexing genomes using on-disk suffix trees
-
CIKM, Napa Valley, CA, U.S.A.
-
Barsky M, Stege U, Thomo A, Upton C,. A new method for indexing genomes using on-disk suffix trees. Proceedings of the 17th ACM Conference on Information and Knowledge Management, CIKM, Napa Valley, CA, U.S.A., 2008; 649-658.
-
(2008)
Proceedings of the 17th ACM Conference on Information and Knowledge Management
, pp. 649-658
-
-
Barsky, M.1
Stege, U.2
Thomo, A.3
Upton, C.4
-
34
-
-
0010905001
-
-
Technical Report LUCS-TR:99-214, Department of Computer Science, Lund University, Sweden
-
Larsson NJ, Sadakane K,. Faster suffix sorting. Technical Report LUCS-TR:99-214, Department of Computer Science, Lund University, Sweden, 1999.
-
(1999)
Faster Suffix Sorting
-
-
Larsson, N.J.1
Sadakane, K.2
-
35
-
-
2942538300
-
Versatile and open software for comparing large genomes
-
Epub 30 January 2004
-
Kurtz S, Phillippy A, Delcher A, Smoot M, Shumway M, Antonescu C, Salzberg S,. Versatile and open software for comparing large genomes. Genome Biology 2004; 5 (2): R12. Epub 30 January 2004.
-
(2004)
Genome Biology
, vol.5
, Issue.2
, pp. 12
-
-
Kurtz, S.1
Phillippy, A.2
Delcher, A.3
Smoot, M.4
Shumway, M.5
Antonescu, C.6
Salzberg, S.7
-
37
-
-
0033066718
-
REPuter: Fast computation of maximal repeats in complete genomes
-
Kurtz S, Schleiermacher C,. REPuter: Fast computation of maximal repeats in complete genomes. Bioinformatics 1999; 15: 426-427.
-
(1999)
Bioinformatics
, vol.15
, pp. 426-427
-
-
Kurtz, S.1
Schleiermacher, C.2
-
39
-
-
35248830635
-
Simple linear work suffix array construction
-
Eindhoven, The Netherlands
-
Kärkkäinen J, Sanders P,. Simple linear work suffix array construction. Proceedings of the 30th International Colloquium on Automata, Languages and Programming, Eindhoven, The Netherlands, 2003; 943-955.
-
(2003)
Proceedings of the 30th International Colloquium on Automata, Languages and Programming
, pp. 943-955
-
-
Kärkkäinen, J.1
Sanders, P.2
-
41
-
-
32144456227
-
Better external memory suffix array construction
-
Vancouver, BC, Canada
-
Dementiev R, Kärkkäinen J, Mehnert J, Sanders P,. Better external memory suffix array construction. Proceedings of the 7th Workshop on Algorithm Engineering and Experiments, Vancouver, BC, Canada, 2005; 1-24.
-
(2005)
Proceedings of the 7th Workshop on Algorithm Engineering and Experiments
, pp. 1-24
-
-
Dementiev, R.1
Kärkkäinen, J.2
Mehnert, J.3
Sanders, P.4
-
42
-
-
84956976999
-
Linear-time longest-common-prefix computation in suffix arrays and its applications
-
(Lecture Notes in Computer Science, vol. 2089). Springer: Berlin
-
Kasai T, Lee G, Arimura H, Arikawa S, Park K,. Linear-time longest-common-prefix computation in suffix arrays and its applications. Proceedings of the CPM-2001 (Lecture Notes in Computer Science, vol. 2089). Springer: Berlin, 2001; 181-192.
-
(2001)
Proceedings of the CPM-2001
, pp. 181-192
-
-
Kasai, T.1
Lee, G.2
Arimura, H.3
Arikawa, S.4
Park, K.5
-
43
-
-
35048818017
-
Two Space Saving Tricks for Linear Time LCP Array Computation
-
(Lecture Notes in Computer Science, vol. 3111). Springer: Berlin
-
Manzini G,. Two Space Saving Tricks for Linear Time LCP Array Computation. Proceedings of the 9th Scandinavian Workshop on Algorithm Theory (Lecture Notes in Computer Science, vol. 3111). Springer: Berlin, 2004; 372-383.
-
(2004)
Proceedings of the 9th Scandinavian Workshop on Algorithm Theory
, pp. 372-383
-
-
Manzini, G.1
-
44
-
-
84994666437
-
External-memory graph algorithms
-
San Francisco, CA, U.S.A.
-
Chiang Y, Goodrich M, Grove E, Tamassia R, Vengroff D, Vitter J,. External-memory graph algorithms. Proceedings of the 6th Annual ACM-SIAM Symposium on Discrete Algorithms, San Francisco, CA, U.S.A., 1995; 139-149.
-
(1995)
Proceedings of the 6th Annual ACM-SIAM Symposium on Discrete Algorithms
, pp. 139-149
-
-
Chiang, Y.1
Goodrich, M.2
Grove, E.3
Tamassia, R.4
Vengroff, D.5
Vitter, J.6
|