25 entries « 1 of 2 »
1.

Blassel, Luc; Medvedev, Paul; Chikhi, Rayan

Mapping-friendly sequence reductions: Going beyond homopolymer compression Journal Article

In: iScience, vol. 25, no. 11, pp. 105305, 2022, ISSN: 2589-0042.

Abstract | Links | BibTeX

2.

Lemane, Téo; Chikhi, Rayan; Peterlongo, Pierre

kmdiff, large-scale and user-friendly differential k-mer analyses Journal Article

In: Bioinformatics, 2022, ISSN: 1367-4811.

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3.

Dufresne, Yoann; Lemane, Teo; Marijon, Pierre; Peterlongo, Pierre; Rahman, Amatur; Kokot, Marek; Medvedev, Paul; Deorowicz, Sebastian; Chikhi, Rayan

The K-mer File Format: a standardized and compact disk representation of sets of k-mers Journal Article

In: Bioinformatics, vol. 38, no. 18, pp. 4423–4425, 2022, ISSN: 1367-4811.

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4.

Charalampopoulos, Panagiotis; Pissis, Solon P.; Radoszewski, Jakub

Longest Palindromic Substring in Sublinear Time Inproceedings

In: Bannai, Hideo; Holub, Jan (Ed.): 33rd Annual Symposium on Combinatorial Pattern Matching (CPM 2022), pp. 20:1–20:9, Schloss Dagstuhl -- Leibniz-Zentrum für Informatik, Dagstuhl, Germany, 2022, ISSN: 1868-8969.

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5.

Bernardini, Giulia; Conte, Alessio; Gabory, Esteban; Grossi, Roberto; Loukides, Grigorios; Pissis, Solon P.; Punzi, Giulia; Sweering, Michelle

On Strings Having the Same Length- k Substrings Inproceedings

In: Bannai, Hideo; Holub, Jan (Ed.): 33rd Annual Symposium on Combinatorial Pattern Matching (CPM 2022), pp. 16:1–16:17, Schloss Dagstuhl -- Leibniz-Zentrum für Informatik, Dagstuhl, Germany, 2022, ISSN: 1868-8969.

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6.

Teramo, Antonella; Binatti, Andrea; Ciabatti, Elena; Schiavoni, Gianluca; Tarrini, Giulia; Baril`a, Gregorio; Calabretto, Giulia; Vicenzetto, Cristina; Gasparini, Vanessa Rebecca; Facco, Monica; Petrini, Iacopo; Grossi, Roberto; Pisanti, Nadia; Bortoluzzi, Stefania; Falini, Brunangelo; Tiacci, Enrico; Galimberti, Sara; Semenzato, Gianpietro; Zambello, Renato

Defining TCRγδlymphoproliferative disorders by combined immunophenotypic and molecular evaluation Journal Article

In: Nature Communications, vol. 13, no. 1, pp. 3298, 2022, ISBN: 2041-1723.

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7.

Bernardini, Giulia; Chen, Huiping; Loukides, Grigorios; Pissis, Solon P.; Stougie, Leen; Sweering, Michelle

Making de Bruijn Graphs Eulerian Inproceedings

In: Bannai, Hideo; Holub, Jan (Ed.): 33rd Annual Symposium on Combinatorial Pattern Matching (CPM 2022), pp. 12:1–12:18, Schloss Dagstuhl -- Leibniz-Zentrum für Informatik, Dagstuhl, Germany, 2022, ISSN: 1868-8969.

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8.

Bonnet, Konstantinn; Marschall, Tobias; Doerr, Daniel

Constructing founder sets under allelic and non-allelic homologous recombination Unpublished

bioRxiv, 2022.

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9.

Bernardini, Giulia; Gawrychowski, Paweł; Pisanti, Nadia; Pissis, Solon P.; Rosone, Giovanna

Elastic-Degenerate String Matching via Fast Matrix Multiplication Journal Article

In: SIAM Journal on Computing, vol. 51, no. 3, pp. 549–576, 2022.

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10.

Charalampopoulos, Panagiotis; Iliopoulos, Costas S.; Kociumaka, Tomasz; Pissis, Solon P.; Radoszewski, Jakub; Straszy'nski, Juliusz

Efficient Computation of Sequence Mappability Journal Article

In: Algorithmica, vol. 84, no. 5, pp. 1418–1440, 2022, ISBN: 1432-0541.

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11.

Luo, Xiao; Kang, Xiongbin; Schönhuth, Alexander

Strainline: full-length de novo viral haplotype reconstruction from noisy long reads Journal Article

In: Genome Biology, vol. 23, no. 1, pp. 29, 2022, ISSN: 1474-760X.

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12.

Gažiová, M.; Sládeček, T.; Pös, O.; Števko, M.; Krampl, W.; Pös, Z.; Hekel, R.; Hlavačka, M.; Kucharík, M.; Radvánszky, J.; Budiš, J.; Szemes, T.

Automated prediction of the clinical impact of structural copy number variations Journal Article

In: Scientific Reports, vol. 12, no. 1, pp. 555, 2022, ISSN: 2045-2322.

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13.

Rizzo, Nicola; Mäkinen, Veli

Linear Time Construction of Indexable Elastic Founder Graphs Inproceedings

In: Bazgan, Cristina; Fernau, Henning (Ed.): Combinatorial Algorithms, pp. 480–493, Springer International Publishing, Cham, 2022, ISBN: 978-3-031-06678-8.

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14.

Mwaniki, Njagi Moses; Garrison, Erik; Pisanti, Nadia

Fast Exact String to D-Texts Alignments Unpublished

arXiv, 2022.

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15.

Zhong, Haodi; Loukides, Grigorios; Pissis, Solon P.

Clustering sequence graphs Journal Article

In: Data & Knowledge Engineering, vol. 138, pp. 101981, 2022, ISSN: 0169-023X.

Abstract | Links | BibTeX

16.

Cartes, Jorge Avila; Anand, Santosh; Ciccolella, Simone; Bonizzoni, Paola; Vedova, Gianluca Della

Accurate and Fast Clade Assignment via Deep Learning and Frequency Chaos Game Representation Journal Article

In: bioRxiv, 2022.

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17.

Rizzo, Nicola; Mäkinen, Veli

Indexable Elastic Founder Graphs of Minimum Height Inproceedings

In: Bannai, Hideo; Holub, Jan (Ed.): 33rd Annual Symposium on Combinatorial Pattern Matching (CPM 2022), pp. 19:1–19:19, Schloss Dagstuhl -- Leibniz-Zentrum für Informatik, Dagstuhl, Germany, 2022, ISSN: 1868-8969.

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18.

Badkobeh, Golnaz; Charalampopoulos, Panagiotis; Kosolobov, Dmitry; Pissis, Solon P.

Internal shortest absent word queries in constant time and linear space Journal Article

In: Theoretical Computer Science, vol. 922, pp. 271-282, 2022, ISSN: 0304-3975.

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19.

Mirka, Renee; Williamson, David P.

An Experimental Evaluation of Semidefinite Programming and Spectral Algorithms for Max Cut Inproceedings

In: Schulz, Christian; Uçar, Bora (Ed.): 20th International Symposium on Experimental Algorithms (SEA 2022), pp. 19:1–19:14, Schloss Dagstuhl -- Leibniz-Zentrum für Informatik, Dagstuhl, Germany, 2022, ISSN: 1868-8969.

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20.

Charalampopoulos, Panagiotis; Chen, Huiping; Christen, Peter; Loukides, Grigorios; Pisanti, Nadia; Pissis, Solon P.; Radoszewski, Jakub

Pattern Masking for Dictionary Matching Inproceedings

In: Ahn, Hee-Kap; Sadakane, Kunihiko (Ed.): 32nd International Symposium on Algorithms and Computation (ISAAC 2021), pp. 65:1–65:19, Schloss Dagstuhl -- Leibniz-Zentrum für Informatik, Dagstuhl, Germany, 2021, ISSN: 1868-8969.

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25 entries « 1 of 2 »