R toolkit for single cell genomics

Multi-Omics Factor Analysis

Haplotype-aware CNV analysis from single-cell RNA-seq, ATAC-seq, and multiome

Total copy number inference from single-cell RNA and ATAC sequing with cell clustering

"Contrast Subgraphs Allow Comparing Homogeneous and Heterogeneous Networks Derived from Omics Data" - T. Lanciano, A. Savino, F. Porcu, D. Cittaro, F. Bonchi, P. Provero