MetaProb: accurate metagenomic reads binning based on probabilistic sequence signatures von Girotto, Samuele, Pizzi, Cinzia, Comin, Matteo

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Efficient computation of spaced seed hashing with block indexing von Girotto, Samuele, Comin, Matteo, Pizzi, Cinzia

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Higher recall in metagenomic sequence classification exploiting overlapping reads von Girotto, Samuele, Comin, Matteo, Pizzi, Cinzia

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MOODS: fast search for position weight matrix matches in DNA sequences von Korhonen, Janne, Martinmäki, Petri, Pizzi, Cinzia, Rastas, Pasi, Ukkonen, Esko

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FSH: fast spaced seed hashing exploiting adjacent hashes von Girotto, Samuele, Comin, Matteo, Pizzi, Cinzia

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MissMax: alignment-free sequence comparison with mismatches through filtering and heuristics von Pizzi, Cinzia

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MetaProb 2: Metagenomic Reads Binning Based on Assembly Using Minimizers and K-Mers Statistics von Andreace, Francesco, Pizzi, Cinzia, Comin, Matteo

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Fast Approximation of Frequent k-Mers and Applications to Metagenomics von Pellegrina, Leonardo, Pizzi, Cinzia, Vandin, Fabio

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MISSH: Fast Hashing of Multiple Spaced Seeds von Mian, Eleonora, Petrucci, Enrico, Pizzi, Cinzia, Comin, Matteo

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Metagenomic reads binning with spaced seeds von Girotto, Samuele, Comin, Matteo, Pizzi, Cinzia

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Efficient algorithms for the discovery of gapped factors von Apostolico, Alberto, Pizzi, Cinzia, Ukkonen, Esko

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Iterative Spaced Seed Hashing: Closing the Gap Between Spaced Seed Hashing and k-mer Hashing von Petrucci, Enrico, Noe, Laurent, Pizzi, Cinzia, Comin, Matteo

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Comparison of microbiome samples: methods and computational challenges von Comin, Matteo, Di Camillo, Barbara, Pizzi, Cinzia, Vandin, Fabio

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A new distributed alignment-free approach to compare whole proteomes von Ferraro Petrillo, Umberto, Guerra, Concettina, Pizzi, Cinzia

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Irredundant tandem motifs von Parida, Laxmi, Pizzi, Cinzia, Rombo, Simona E.

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k -difference matching in amortized linear time for all the words in a text von Pizzi, Cinzia

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A multistep bioinformatic approach detects putative regulatory elements in gene promoters von Bortoluzzi, Stefania, Coppe, Alessandro, Bisognin, Andrea, Pizzi, Cinzia, Danieli, Gian Antonio

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Sequence similarity measures based on bounded hamming distance von Apostolico, Alberto, Guerra, Concettina, Landau, Gad M., Pizzi, Cinzia

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Fast profile matching algorithms — A survey von Pizzi, Cinzia, Ukkonen, Esko

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A Filtering Approach for Alignment-Free Biosequences Comparison with Mismatches von Pizzi, Cinzia

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