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CORE: A Software Tool for Delineating Regions of Recurrent DNA Copy Number Alteration in Cancer

  • Guoli Sun
  • Alexander KrasnitzEmail author
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1878)

Abstract

Collections of genomic intervals are a common data type across many areas of computational biology. In cancer genomics, in particular, the intervals often represent regions with altered DNA copy number, and their collections exhibit recurrent features, characteristic of a given cancer type. Cores of Recurrent Events (CORE) is a versatile computational tool for identification of such recurrent features. Here we provide practical guidance for the use of CORE, implemented as an eponymous R package.

Key words

Somatic copy number alterations Combinatorial optimization R language Parallelization 

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Copyright information

© Springer Science+Business Media, LLC, part of Springer Nature 2019

Authors and Affiliations

  1. 1.Intuit Inc.Mountain ViewUSA
  2. 2.Simons Center for Quantitative BiologyCold Spring Harbor LaboratoryCold Spring HarborUSA

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