Precision oncology mainly relies on genetic and molecular patient profiling from high-throughput sequencing data. The necessity to process and analyze large volumes of data has led to the development of robust computational tools and methods. The most challenging aspect in the implementation of a precision oncology workflow involves proper handling of large volume of data, while ensuring the results are reproducible and replicable. In this chapter, we provide a detailed description of the various tools available for the design and implementation of a precision oncology pipeline along with the technical considerations to make to utilize these tools effectively. We then provide a guide to the development of a precision oncology pipeline, with a specific emphasis on the software workflows and infrastructure needed.

Original languageEnglish
Title of host publicationAdvances in Experimental Medicine and Biology
Number of pages13
StatePublished - 2022

Publication series

NameAdvances in Experimental Medicine and Biology
ISSN (Print)0065-2598
ISSN (Electronic)2214-8019


  • Bioinformatics
  • CWL
  • Genomics data processing
  • Pipeline
  • Precision oncology
  • Software infrastructure
  • Workflow
  • Workflow management system


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