Published:
Our paper titled “Efficient CSTs for Terabyte-Sized Data” I co-authored with Marco Oliva, Davide Cenzato, Zsuzsanna Lipták, Travis Gagie, and Christina Boucher has been accepted at the Data Compression Conference 2022 (DCC 22).
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I will be an invited speaker at the Pangenomics Bio Hacking 2021 and I will talk about my recent work on pangenomics.
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Our paper titled “Computing the original eBWT faster, simpler, and with less memory” I co-authored with Christina Boucher, Davide Cenzato, Zsuzsanna Lipták, and Marinella Sciortino has been accepted at the 28th International Symposium on String Processing and Information Retrieval (SPIRE 2021).
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Our paper titled, “Pan-genomic Matching Statistics for Targeted Nanopore Sequencing” I co-authored with Omar Ahmed, Sam Kovaka, Michael C. Schatz, Travis Gagie, Christina Boucher, and Ben Langmead, has been published in iScience. [link]
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Our paper titled, “Pan-genomic Matching Statistics for Targeted Nanopore Sequencing” I co-authored with Omar Ahmed, Sam Kovaka, Michael C. Schatz, Travis Gagie, Christina Boucher, and Ben Langmead, has been accepted at the 11th RECOMB Satellite Workshop on Massively Parallel Sequencing (RECOMB-Seq 2021).
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Our paper titled “Pattern Discovery in Colored Strings” I co-authored with Zsuzsanna Lipták and Simon J. Puglisi has been published in the Journal of Experimental Algorithmics (JEA). [link]
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Our paper titled “PHONI: Streamed Matching Statisticswith Multi-Genome References” I co-authored with Christina Boucher, Travis Gagie, Tomohiro I, Dominik Köppl, Ben Langmead, Giovanni Manzini, Gonzalo Navarro, and Alejandro Pacheco has been accepted at the Data Compression Conference 2021 (DCC 21).
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Our paper titled “Efficiently Merging r-indexes” I co-authored with Marco Oliva, Jouni Sirén, Giovanni Manzini, Tamer Kahveci, Travis Gagie, and Christina Boucher has been accepted at the Data Compression Conference 2021 (DCC 21).
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Our paper titled “MONI: A Pangenomics Index for Finding MEMs” I co-authored with Christina Boucher, Travis Gagie, Ben Langmead, and Marco Oliva has been accepted at the 25th International Conference On Research In Computational Molecular Biology (RECOMB21).
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Our paper titled “PFP Compressed Suffix Trees” I co-authored with Christina Boucher, Ondřej Cvacho, Travis Gagie, Jan Holub, Giovanni Manzini, and Gonzalo Navarro has been accepted at the SIAM Symposium on Algorithm Engineering and Experiments (ALENEX21).
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Our paper titled “On the Redundancy of D-ary Fano codes” I co-authored with Ferdinando Cicalese has been accepted at the 47th International Conference on Current Trends in Theory and Practice of Computer Science (SOFSEM) 2021.
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Our paper titled “Tailoring r-index for metagenomics” I co-authored with Dustin Cobas and Veli Mäkinen has been accepted at the 27th International Symposium on String Processing and Information Retrieval (SPIRE) 2020.
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Our paper titled “Fast and Efficient Rmap Assembly using the Bi-labelled de Bruijn Graph” I co-authored with Kingshuk Mukherjee, Leena Salmela, and Christina Boucher has been accepted at the 20th Workshop on Algorithms in Bioinformatics (WABI) 2020.
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Our paper titled “Pattern Discovery in Colored Strings” I co-authored with Zsuzsanna Lipták and Simon J. Puglisi has been accepted at the 18th Symposium on Experimental Algorithms (SEA 2020).
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I am the publicity chair of the 27th International Symposium on String Processing and Information Retrieval (SPIRE 2020) that will take place on October 13-15th, 2020 in Orlando, FL, United States.
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I will give a talk on “Empirical entropy and Burrows-Wheeler transform” at the Monday Meeting that will take place on 13/01/2020 at 18:00.
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I am organizing the ITACPC Warmup Round #4 that will take place on 14/12/2019 at 9:30 in collaboration with William Di Luigi.
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I will organize the Google Hash Code Hub at the University of Verona.
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I will give 4 lectures (8 hours) on “Dictionary compression” in the course Data Compression Techniques held by Prof. Simon J. Puglisi.
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I will present “Practical mergeable dictionaries” at WCTA 19 in Segovia, Spain. This is a joint work with Simon J. Puglisi.