BONIZZONI, PAOLA
BONIZZONI, PAOLA
DIPARTIMENTO DI INFORMATICA, SISTEMISTICA E COMUNICAZIONE
RecGraph: recombination-aware alignment of sequences to variation graphs
2024 Avila Cartes, J; Bonizzoni, P; Ciccolella, S; Della Vedova, G; Denti, L; Didelot, X; Monti, D; Pirola, Y
Accurate and fast clade assignment via deep learning and frequency chaos game representation
2023 Avila Cartes, J; Anand, S; Ciccolella, S; Bonizzoni, P; Della Vedova, G
Data Structures for SMEM-Finding in the PBWT
2023 Bonizzoni, P; Boucher, C; Cozzi, D; Gagie, T; Köppl, D; Rossi, M
ESGq: Alternative Splicing events quantification across conditions based on Event Splicing Graphs
2023 Cozzi, D; Bonizzoni, P; Denti, L
Identification of Chimeric RNAs: a novel machine learning perspective
2023 Bonizzoni, P; De Felice, C; Pirola, Y; Rizzi, R; Zaccagnino, R; Zizza, R
Multiallelic Maximal Perfect Haplotype Blocks with Wildcards via PBWT
2023 Bonizzoni, P; Della Vedova, G; Pirola, Y; Rizzi, R; Sgrò, M
SVDSS: structural variation discovery in hard-to-call genomic regions using sample-specific strings from accurate long reads
2023 Denti, L; Khorsand, P; Bonizzoni, P; Hormozdiari, F; Chikhi, R
μ-PBWT: a lightweight r-indexing of the PBWT for storing and querying UK Biobank data
2023 Cozzi, D; Rossi, M; Rubinacci, S; Gagie, T; Köppl, D; Boucher, C; Bonizzoni, P
Can Formal Languages Help Pangenomics to Represent and Analyze Multiple Genomes?
2022 Bonizzoni, P; De Felice, C; Pirola, Y; Rizzi, R; Zaccagnino, R; Zizza, R
Computational graph pangenomics: a tutorial on data structures and their applications
2022 Baaijens, J; Bonizzoni, P; Boucher, C; Della Vedova, G; Pirola, Y; Rizzi, R; Sirén, J
Finding Maximal Exact Matches Using the r-Index
2022 Rossi, M; Oliva, M; Bonizzoni, P; Langmead, B; Gagie, T; Boucher, C
KFinger: Capturing Overlaps Between Long Reads by Using Lyndon Fingerprints
2022 Bonizzoni, P; Petescia, A; Pirola, Y; Rizzi, R; Zaccagnino, R; Zizza, R
Numeric Lyndon-based feature embedding of sequencing reads for machine learning approaches
2022 Bonizzoni, P; Costantini, M; De Felice, C; Petescia, A; Pirola, Y; Previtali, M; Rizzi, R; Stoye, J; Zaccagnino, R; Zizza, R
Building bridges – Honoring Nataša Jonoska on the occasion of her 60th birthday
2021 Bonizzoni, P; Kari, L; Petre, I; Rozenberg, G
Can We Replace Reads by Numeric Signatures? Lyndon Fingerprints as Representations of Sequencing Reads for Machine Learning
2021 Bonizzoni, P; De Felice, C; Petescia, A; Pirola, Y; Rizzi, R; Stoye, J; Zaccagnino, R; Zizza, R
Comparative genome analysis using sample-specific string detection in accurate long reads
2021 Khorsand, P; Denti, L; Bonizzoni, P; Chikhi, R; Hormozdiari, F
Computing the multi-string BWT and LCP array in external memory
2021 Bonizzoni, P; Della Vedova, G; Pirola, Y; Previtali, M; Rizzi, R
Effective Clustering for Single Cell Sequencing Cancer Data
2021 Ciccolella, S; Patterson, M; Bonizzoni, P; Della Vedova, G
Incomplete Directed Perfect Phylogeny in Linear Time
2021 Bernardini, G; Bonizzoni, P; Gawrychowski, P
Inferring Cancer Progression from Single-Cell Sequencing while Allowing Mutation Losses
2021 Ciccolella, S; Ricketts, C; Soto Gomez, M; Patterson, M; Silverbush, D; Bonizzoni, P; Hajirasouliha, I; Della Vedova, G