Pysubsim-tree: A package for simulating tumor genomes according to tumor evolution history

摘要

Next-generation sequencing (NGS) and the third generation sequencing (TGS) have recently allowed us to develop algorithms to quantitatively dissect the extent of heterogeneity within a tumour, resolve cancer evolution history and identify the somatic variations and aneuploidy events. Simulation of tumor NGS and TGS data serves as a powerful and cost-effective approach for benchmarking these algorithms, however, there is no available tool that could simulate all the distinct subclonal genomes with diverse aneuploidy events and somatic variations according to the given tumor evolution history. We provide a simulation package, Pysubsim-tree, which could simulate the tumor genomes according to their evolution history defined by the somatic variations and aneuploidy events. Pysubsim-tree is free, open source, available at: https://github.com/dustincys/pysubsimtree.