Rknots: topological analysis of knotted biopolymers with R. - Federico Comoglio; Maurizio Rinaldi (Bioinform., 2012)

Combinatorial Modeling of Chromatin Features Quantitatively Predicts DNA Replication Timing in Drosophila. - Federico Comoglio; Renato Paro (PLoS Comput. Biol., 2014)

Sensitive and highly resolved identification of RNA-protein interaction sites in PAR-CLIP data. - Federico Comoglio; Cem Sievers; Renato Paro (BMC Bioinform., 2015)

DNAshapeR: an R/Bioconductor package for DNA shape prediction and feature encoding. - Tsu-Pei Chiu; Federico Comoglio; Tianyin Zhou; Lin Yang; Renato Paro; Remo Rohs (Bioinform., 2016)