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Several tools have been proposed to infer tumor phylogenies from single-cell sequencing data, but a systematic way of comparing them is still lacking. One of the reasons is that the decomposition of the complete procedure is not settled. We propose a description of the procedure in separate steps and we provide a tool that is able to combine those steps with the final goal of comparing the tools attacking each distinct step. Moreover, we have implemented an easy-to-use graphical application that can run the entire phylogeny inference pipeline, therefore facilitating the use of different tools.

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Plastic: An Easy to Use and Modular Tool for Benchmarking Tumor Phylogeny Reconstruction Pipelines

  • 会议论文

  • 发表日期：

    2025年

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  • Akshay Juyal,
  • Zahra Tayebi,
  • Alexander Zelikovsky,
  • Mauricio Soto-Gomez,
  • Simone Ciccolella,
  • Gianluca Della Vedova,
  • Murray Patterson

摘要

Several tools have been proposed to infer tumor phylogenies from single-cell sequencing data, but a systematic way of comparing them is still lacking. One of the reasons is that the decomposition of the complete procedure is not settled. We propose a description of the procedure in separate steps and we provide a tool that is able to combine those steps with the final goal of comparing the tools attacking each distinct step. Moreover, we have implemented an easy-to-use graphical application that can run the entire phylogeny inference pipeline, therefore facilitating the use of different tools.