Marco Previtali

Shark removes irrelevant RNA-Seq reads to improve analysis efficiency without affecting results.

The paper introduces MP3, a similarity measure for tumor phylogenies that handles multiple mutations, and shows it correctly classifies trees on simulated and real data.

MALVIRUS efficiently calls viral variants from sequencing data and generates population SNP catalogs, validated against GISAID data for SARS-CoV-2.

MALVA is a mapping-free genotyping method that efficiently handles multi-allelic SNPs, indels, and high-density variants with high accuracy and speed.

ASGAL aligns RNA-Seq data to a splicing graph to detect novel alternative splicing events, outperforming methods that align to a reference genome.