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1

String matching with inversions and translocations in linear average time (most of the time)

Szymon Grabowski, Simone Faro, Emanuele Giaquinta

Journal:

Information Processing Letters

Year:

2011

Language:

english

File:

PDF, 158 KB

english, 2011

2

A compact representation of nondeterministic (suffix) automata for the bit-parallel approach

Domenico Cantone, Simone Faro, Emanuele Giaquinta

Journal:

Information and Computation

Year:

2012

Language:

english

File:

PDF, 202 KB

english, 2012

3

On the bit-parallel simulation of the nondeterministic Aho–Corasick and suffix automata for a set of patterns

Domenico Cantone, Simone Faro, Emanuele Giaquinta

Journal:

Journal of Discrete Algorithms

Year:

2012

Language:

english

File:

PDF, 241 KB

english, 2012

4

Fast Matching of Transcription Factor Motifs Using Generalized Position Weight Matrix Models

Giaquinta, Emanuele, Grabowski, Szymon, Ukkonen, Esko

Journal:

Journal of Computational Biology

Year:

2013

Language:

english

File:

PDF, 369 KB

english, 2013

5

Approximate pattern matching with k-mismatches in packed text

Giaquinta, Emanuele, Grabowski, Szymon, Fredriksson, Kimmo

Journal:

Information Processing Letters

Year:

2013

Language:

english

File:

PDF, 204 KB

english, 2013

6

On a compact encoding of the swap automaton

Fredriksson, Kimmo, Giaquinta, Emanuele

Journal:

Information Processing Letters

Year:

2014

Language:

english

File:

PDF, 244 KB

english, 2014

7

New algorithms for binary jumbled pattern matching

Giaquinta, Emanuele, Grabowski, Szymon

Journal:

Information Processing Letters

Year:

2013

Language:

english

File:

PDF, 200 KB

english, 2013

8

Text searching allowing for inversions and translocations of factors

Cantone, Domenico, Faro, Simone, Giaquinta, Emanuele

Journal:

Discrete Applied Mathematics

Year:

2014

Language:

english

File:

PDF, 468 KB

english, 2014

9

An Effective Exact Algorithm and a New Upper Bound for the Number of Contacts in the Hydrophobic-Polar Two-Dimensional Lattice Model

Giaquinta, Emanuele, Pozzi, Laura

Journal:

Journal of Computational Biology

Year:

2013

Language:

english

File:

PDF, 560 KB

english, 2013

10

Motif matching using gapped patterns

Giaquinta, Emanuele, Fredriksson, Kimmo, Grabowski, Szymon, Tomescu, Alexandru I., Ukkonen, Esko

Journal:

Theoretical Computer Science

Year:

2014

Language:

english

File:

PDF, 559 KB

english, 2014

11

PATTERN MATCHING WITH SWAPS IN PRACTICE

CAMPANELLI, MATTEO, CANTONE, DOMENICO, FARO, SIMONE, GIAQUINTA, EMANUELE

Journal:

International Journal of Foundations of Computer Science

Year:

2012

Language:

english

File:

PDF, 304 KB

english, 2012

12

ADAPTING BOYER-MOORE-LIKE ALGORITHMS FOR SEARCHING HUFFMAN ENCODED TEXTS

CANTONE, DOMENICO, FARO, SIMONE, GIAQUINTA, EMANUELE

Journal:

International Journal of Foundations of Computer Science

Year:

2012

Language:

english

File:

PDF, 250 KB

english, 2012

13

Maximum Convex Subgraphs Under I/O Constraint for Automatic Identification of Custom Instructions

Giaquinta, Emanuele, Mishra, Anadi, Pozzi, Laura

Journal:

IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems

Year:

2015

Language:

english

File:

PDF, 1.73 MB

english, 2015

14

Longest common substrings with k mismatches

Flouri, Tomas, Giaquinta, Emanuele, Kobert, Kassian, Ukkonen, Esko

Journal:

Information Processing Letters

Year:

2015

Language:

english

File:

PDF, 251 KB

english, 2015

15

Technology beats algorithms (in exact string matching)

Tarhio, Jorma, Holub, Jan, Giaquinta, Emanuele

Journal:

Software: Practice and Experience

Year:

2017

Language:

english

File:

PDF, 1.23 MB

english, 2017

16

RegionSeeker: Automatically Identifying and Selecting Accelerators from Application Source Code

Zacharopoulos, Georgios, Ferretti, Lorenzo, Giaquinta, Emanuele, Ansaloni, Giovanni, Pozzi, Laura

Journal:

IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems

Year:

2018

Language:

english

File:

PDF, 4.25 MB

english, 2018

17

Lyndon Factorization Algorithms for Small Alphabets and Run-Length Encoded Strings

Ghuman, Sukhpal Singh, Giaquinta, Emanuele, Tarhio, Jorma

Journal:

Year:

2019

Language:

english

File:

PDF, 829 KB

english, 2019

18

Lyndon Factorization Algorithms for Small Alphabets and Run-Length Encoded Strings

Ghuman, Sukhpal Singh, Giaquinta, Emanuele, Tarhio, Jorma

Journal:

Year:

2019

File:

PDF, 829 KB

2019

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