Motivation: We introduce TRONCO (TRanslational ONCOlogy), an open-source R package that implements the state-of-the-art algorithms for the inference of cancer progression models from (epi)genomic mutational profiles. TRONCO can be used to extract population-level models describing the trends of accumulation of alterations in a cohort of cross-sectional samples, e.g., retrieved from publicly available databases, and individual-level models that reveal the clonal evolutionary history in single cancer patients, when multiple samples, e.g., multiple biopsies or single-cell sequencing data, are available. The resulting models can provide key hints in uncovering the evolutionary trajectories of cancer, especially for precision medicine or personalized therapy. Availability: TRONCO is released under the GPL license, it is hosted in the Software section at http://bimib.disco.unimib.it/ and archived also at bioconductor.org. Contact: [email protected]
@article{arxiv.1509.07304,
title = {TRONCO: an R package for the inference of cancer progression models from heterogeneous genomic data},
author = {Luca De Sano and Giulio Caravagna and Daniele Ramazzotti and Alex Graudenzi and Giancarlo Mauri and Bud Mishra and Marco Antoniotti},
journal= {arXiv preprint arXiv:1509.07304},
year = {2016}
}