Quantification of aneuploidy in targeted sequencing data using ASCETS
Liam F. Spurr, Mehdi Touat, Alison M. Taylor, Adrian M. Dubuc, Juliann Shih, David M. Meredith, William Pisano, Matthew L Meyerson, Keith L. Ligon, Andrew D. Cherniack, Yvonne Y. Li, Rameen Beroukhim
Abstract
SUMMARY: The expansion of targeted panel sequencing efforts has created opportunities for large-scale genomic analysis, but tools for copy-number quantification on panel data are lacking. We introduce ASCETS, a method for the efficient quantitation of arm and chromosome-level copy-number changes from targeted sequencing data. AVAILABILITY AND IMPLEMENTATION: ASCETS is implemented in R and is freely available to non-commercial users on GitHub: https://github.com/beroukhim-lab/ascets, along with detailed documentation. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.