-
1
-
-
0042960934
-
Fast and practical approximate string matching
-
Baeza-Yates, R.A., Perleberg, C.H.: Fast and practical approximate string matching. Inf. Process. Lett. 59(1), 21–27 (1996)
-
(1996)
Inf. Process. Lett
, vol.59
, Issue.1
, pp. 21-27
-
-
Baeza-Yates, R.A.1
Perleberg, C.H.2
-
2
-
-
85018107339
-
Improved space-time tradeoffs for approximate full-text indexing with one edit error
-
Belazzougui, D.: Improved space-time tradeoffs for approximate full-text indexing with one edit error. Algorithmica, pp. 1–27 (2014)
-
(2014)
Algorithmica
, pp. 1-27
-
-
Belazzougui, D.1
-
3
-
-
84884295902
-
Versatile succinct representations of the bidirectional burrows-wheeler transform
-
In: Bodlaender, H.L., Italiano, G.F. (eds.), Springer, Heidelberg
-
Belazzougui, D., Cunial, F., Kärkkäinen, J., Mäkinen, V.: Versatile succinct representations of the bidirectional burrows-wheeler transform. In: Bodlaender, H.L., Italiano, G.F. (eds.) ESA 2013. LNCS, vol. 8125, pp. 133–144. Springer, Heidelberg (2013)
-
(2013)
ESA 2013. LNCS
, vol.8125
, pp. 133-144
-
-
Belazzougui, D.1
Cunial, F.2
Kärkkäinen, J.3
Mäkinen, V.4
-
4
-
-
80755140493
-
A linear size index for approximate pattern matching
-
Chan, H.L., Lam, T.W., Sung, W.K., Tam, S.L., Wong, S.S.: A linear size index for approximate pattern matching. J. Discrete Algorithms 9(4), 358–364 (2011)
-
(2011)
J. Discrete Algorithms
, vol.9
, Issue.4
, pp. 358-364
-
-
Chan, H.L.1
Lam, T.W.2
Sung, W.K.3
Tam, S.L.4
Wong, S.S.5
-
5
-
-
84937413030
-
A metric index for approximate string matching
-
In: Rajsbaum, S. (ed.), Springer, Heidelberg
-
Chávez, E., Navarro, G.: A metric index for approximate string matching. In: Rajsbaum, S. (ed.) LATIN 2002. LNCS, vol. 2286, pp. 181–195. Springer, Heidelberg (2002)
-
(2002)
LATIN 2002. LNCS
, vol.2286
, pp. 181-195
-
-
Chávez, E.1
Navarro, G.2
-
6
-
-
39549090389
-
SeqAn an efficient, generic C++ library for sequence analysis
-
Döring, A., Weese, D., Rausch, T., Reinert, K.: SeqAn an efficient, generic C++ library for sequence analysis. BMC Bioinformatics 9(1), 11–19 (2008)
-
(2008)
BMC Bioinformatics
, vol.9
, Issue.1
, pp. 11-19
-
-
Döring, A.1
Weese, D.2
Rausch, T.3
Reinert, K.4
-
7
-
-
84979917497
-
Compressed text indexes: From theory to practice
-
Ferragina, P., González, R., Navarro, G., Venturini, R.: Compressed text indexes: from theory to practice. J. Exp. Algorithmics (JEA) 13, 12 (2009)
-
(2009)
J. Exp. Algorithmics (JEA)
, vol.13
, pp. 12
-
-
Ferragina, P.1
González, R.2
Navarro, G.3
Venturini, R.4
-
8
-
-
30544432152
-
Indexing compressed text
-
Ferragina, P., Manzini, G.: Indexing compressed text. J. ACM (JACM) 52(4), 552–581 (2005)
-
(2005)
J. ACM (JACM)
, vol.52
, Issue.4
, pp. 552-581
-
-
Ferragina, P.1
Manzini, G.2
-
9
-
-
34250171723
-
Compressed representations of sequences and full-text indexes
-
Ferragina, P., Manzini, G., Mäkinen, V., Navarro, G.: Compressed representations of sequences and full-text indexes. ACM Trans. Alg. (TALG) 3(2) (2007)
-
(2007)
ACM Trans. Alg. (TALG)
, vol.3
, Issue.2
-
-
Ferragina, P.1
Manzini, G.2
Mäkinen, V.3
Navarro, G.4
-
10
-
-
37149024331
-
A bit-vector algorithm for computing levenshtein and damerau edit distances
-
Hyyrö, H.: A bit-vector algorithm for computing levenshtein and damerau edit distances. Nord. J. Comput. 10(1), 29–39 (2003)
-
(2003)
Nord. J. Comput
, vol.10
, Issue.1
, pp. 29-39
-
-
Hyyrö, H.1
-
11
-
-
84859210032
-
Fast gapped-read alignment with Bowtie 2
-
Langmead, B., Salzberg, S.L.: Fast gapped-read alignment with Bowtie 2. Nat. Meth. 9(4), 357–359 (2012)
-
(2012)
Nat. Meth
, vol.9
, Issue.4
, pp. 357-359
-
-
Langmead, B.1
Salzberg, S.L.2
-
12
-
-
67649884743
-
Fast and accurate short read alignment with burrows-wheeler transform
-
(Oxford, England)
-
Li, H., Durbin, R.: Fast and accurate short read alignment with burrows-wheeler transform. bioinformatics 25(14), 1754–1760 (2009). (Oxford, England)
-
(2009)
Bioinformatics
, vol.25
, Issue.14
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
13
-
-
35348834170
-
Text indexing with errors
-
Maaß, M.G., Nowak, J.: Text indexing with errors. J. Discrete Algorithms 5(4), 662–681 (2007)
-
(2007)
J. Discrete Algorithms
, vol.5
, Issue.4
, pp. 662-681
-
-
Maaß, M.G.1
Nowak, J.2
-
14
-
-
0000541351
-
A fast bit-vector algorithm for approximate string matching based on dynamic programming
-
Myers, G.: A fast bit-vector algorithm for approximate string matching based on dynamic programming. J. ACM 46(3), 395–415 (1999)
-
(1999)
J. ACM
, vol.46
, Issue.3
, pp. 395-415
-
-
Myers, G.1
-
15
-
-
0345566149
-
A guided tour to approximate string matching
-
Navarro, G.: A guided tour to approximate string matching. ACM comput. surv. (CSUR) 33(1), 31–88 (2001)
-
(2001)
ACM Comput. Surv. (CSUR)
, vol.33
, Issue.1
, pp. 31-88
-
-
Navarro, G.1
-
16
-
-
2442603117
-
A hybrid indexing method for approximate string matching
-
Navarro, G., Baeza-Yates, R.: A hybrid indexing method for approximate string matching. J. Discrete Algorithms 1, 19–27 (2001)
-
(2001)
J. Discrete Algorithms
, vol.1
, pp. 19-27
-
-
Navarro, G.1
Baeza-Yates, R.2
-
17
-
-
84937439801
-
Indexing text with approximate q-grams
-
In: Giancarlo, R., Sankoff, D. (eds.), Springer, Heidelberg
-
Navarro, G., Sutinen, E., Tanninen, J., Tarhio, J.: Indexing text with approximate q-grams. In: Giancarlo, R., Sankoff, D. (eds.) CPM 2000. LNCS, vol. 1848, pp. 350–363. Springer, Heidelberg (2000)
-
(2000)
CPM 2000. LNCS
, vol.1848
, pp. 350-363
-
-
Navarro, G.1
Sutinen, E.2
Tanninen, J.3
Tarhio, J.4
-
18
-
-
84871632660
-
Efficient indexing algorithms for approximate pattern matching in text
-
ACM, New York
-
Petri, M., Culpepper, J.S.: Efficient indexing algorithms for approximate pattern matching in text. In: Proceedings of the Seventeenth Australasian Document Computing Symposium, ADCS 2012, pp. 9–16. ACM, New York (2012)
-
(2012)
Proceedings of the Seventeenth Australasian Document Computing Symposium, ADCS 2012
, pp. 9-16
-
-
Petri, M.1
Culpepper, J.S.2
-
19
-
-
78449269708
-
Approximate string matching with compressed indexes
-
Russo, L., Navarro, G., Oliveira, A.L., Morales, P.: Approximate string matching with compressed indexes. Algorithms 2(3), 1105–1136 (2009)
-
(2009)
Algorithms
, vol.2
, Issue.3
, pp. 1105-1136
-
-
Russo, L.1
Navarro, G.2
Oliveira, A.L.3
Morales, P.4
-
20
-
-
84862524261
-
Mapping reads on a genomic sequence: An algorithmic overview and a practical comparative analysis
-
Schbath, S., Martin, V., Zytnicki, M., Fayolle, J., Loux, V., Gibrat, J.F.: Mapping reads on a genomic sequence: an algorithmic overview and a practical comparative analysis. J. Comput. Biol. 19(6), 796–813 (2012)
-
(2012)
J. Comput. Biol
, vol.19
, Issue.6
, pp. 796-813
-
-
Schbath, S.1
Martin, V.2
Zytnicki, M.3
Fayolle, J.4
Loux, V.5
Gibrat, J.F.6
-
21
-
-
79956312806
-
Bidirectional search in a string with wavelet trees
-
In: Amir, A., Parida, L. (eds.), Springer, Heidelberg
-
Schnattinger, T., Ohlebusch, E., Gog, S.: Bidirectional search in a string with wavelet trees. In: Amir, A., Parida, L. (eds.) CPM 2010. LNCS, vol. 6129, pp. 40–50. Springer, Heidelberg (2010)
-
(2010)
CPM 2010. LNCS
, vol.6129
, pp. 40-50
-
-
Schnattinger, T.1
Ohlebusch, E.2
Gog, S.3
-
22
-
-
59749085509
-
Distribution of CRISPR spacer matches in viruses and plasmids of crenarchaeal acidothermophiles and implications for their inhibitory mechanism
-
Shah, S.A., Hansen, N.R., Garrett, R.A.: Distribution of CRISPR spacer matches in viruses and plasmids of crenarchaeal acidothermophiles and implications for their inhibitory mechanism. Biochem. Soc. Trans. 37(1), 23 (2009)
-
(2009)
Biochem. Soc. Trans
, vol.37
, Issue.1
, pp. 23
-
-
Shah, S.A.1
Hansen, N.R.2
Garrett, R.A.3
-
23
-
-
24044447664
-
Automated generation of heuristics for biological sequence comparison
-
Slater, G.S.C., Birney, E.: Automated generation of heuristics for biological sequence comparison. BMC Bioinformatics 6, 1–11 (2005)
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 1-11
-
-
Slater, G.1
Birney, E.2
-
24
-
-
77955085897
-
Self-targeting by CRISPR: Gene regulation or autoimmunity?
-
Stern, A., Keren, L., Wurtzel, O., Amitai, G., Sorek, R.: Self-targeting by CRISPR: gene regulation or autoimmunity? Trends Genet. 26(8), 335–340 (2010)
-
(2010)
Trends Genet
, vol.26
, Issue.8
, pp. 335-340
-
-
Stern, A.1
Keren, L.2
Wurtzel, O.3
Amitai, G.4
Sorek, R.5
-
25
-
-
20644449571
-
An abundance of RNA regulators
-
Storz, G., Altuvia, S., Wassarman, K.M.: An abundance of RNA regulators. Annu. Rev. Biochem. 74, 199–217 (2005)
-
(2005)
Annu. Rev. Biochem
, vol.74
, pp. 199-217
-
-
Storz, G.1
Altuvia, S.2
Wassarman, K.M.3
-
26
-
-
84870471176
-
RazerS 3: Faster, fully sensitive read mapping
-
Weese, D., Holtgrewe, M., Reinert, K.: RazerS 3: faster, fully sensitive read mapping. Bioinformatics 28(20), 2592–2599 (2012)
-
(2012)
Bioinformatics
, vol.28
, Issue.20
, pp. 2592-2599
-
-
Weese, D.1
Holtgrewe, M.2
Reinert, K.3
-
27
-
-
84976654685
-
Fast text searching: Allowing errors
-
Wu, S., Manber, U.: Fast text searching: allowing errors. Commun. ACM 35(10), 83–91 (1992)
-
(1992)
Commun. ACM
, vol.35
, Issue.10
, pp. 83-91
-
-
Wu, S.1
Manber, U.2
|